APSIM Simulation Toolkit
In-houseAPSIM GUI batch runner supporting parameter sweeps, scenario comparison and result organisation.
Research tool library
Filter tools by task category, platform and type. The list shows only checked cost and licence information; anything unchecked is explained on the tool page, with a pointer to the official site.
445 tools
PDF Watermark Tool
In-houseBatch PDF watermarking tool supporting text and image watermarks.
VBA Certificate Generator
In-houseGenerates self-signed code signing certificates for Excel / Word VBA macro projects.
Open-source TCAD semiconductor device simulator for PN junction, MOS and drift-diffusion model research.
Lightning-fast local file search for Windows, suited to quickly finding papers, data, code, images and project files.
Free, open-source layout viewer and editor for GDS/OASIS file inspection and scripted processing.
Microsoft’s Windows utility collection, published on GitHub under the MIT licence, for window management, batch renaming, colour picking and text extraction.
Open-source SPICE circuit simulator for analogue circuits, device models and mixed-signal simulation.
Open-source RTL-to-GDS digital chip toolchain for automated place-and-route and open-source chip research.
Free PDF toolbox supporting merging, splitting, compression, conversion, OCR, watermarks and page operations.
Free, open-source screenshot, screen recording and GIF tool for research demos, paper revisions and software tutorials.
Open-source Verilog synthesis tool for digital circuits and open-source chip design flows.
Free, open-source medical and 3D image analysis platform for volume data segmentation and visualisation.
Free, open-source compression tool for archiving research data packages, code packages and project files.
Open-source first-principles materials code for analysing semiconductor band structures, dielectric and optical properties.
Open-source R packages for ecological multivariate statistics and spatial ecology, suited to ordination, spatial structure and multiscale analysis.
Open-source subtitle timing editor for fine-tuning subtitles in course, interview and demo videos.
Open-source machine learning experiment tracker for parameters, metrics, charts and model training runs.
Open-source declarative statistical visualisation library for Python data analysis and fast chart creation.
Open-source spaced repetition tool for language learning, exam revision and flashcard management.
Free corpus analysis tool for word frequency, keywords, collocations and concordance searches.
Open-source workflow scheduling platform for data pipelines, scheduled tasks and research workflow automation.
Cross-language open-source columnar data format and compute infrastructure for high-performance data exchange.
Open-source data flow platform for data collection, transfer, transformation and flow orchestration.
Apache's open-source data visualisation and business intelligence platform for building complex dashboards.
Open-source low-code internal tool platform for data admin panels, forms and project management interfaces.
World-leading agricultural systems model simulating crops, soil and water processes end to end.
FAO crop water productivity model for water stress and irrigation management research.
Open-source Bayesian model diagnostics and visualisation tool for checking MCMC results and posterior analysis.
Python atomic simulation environment for building material structures, batch-submitting calculations and post-processing.
Open-source AI-assisted systematic review screening tool for title and abstract screening of large literature sets.
Free, open-source audio recording and editing software for interviews, lecture recordings and audio data processing.
Open-source AutoML tool for tabular, image, text and multimodal modelling.
Windows automation scripting tool for hotkeys, batch operations and automating repetitive tasks.
Open-source molecular structure editor and visualiser for drawing chemical structures and viewing molecular models.
Open-source Airtable-style database tool for project tables, document libraries and lightweight data management.
Open-source variant file tool for viewing, filtering, summarising and analysing VCF/BCF.
Open-source Bayesian phylogenetics software for inferring divergence times, trees and population history.
Open-source topic modelling tool for sentence-embedding-based text clustering, topic discovery and visualisation.
Collection of open-source bioinformatics packages in the R ecosystem for omics data processing and statistical analysis.
Open-source web-based bioimage and medical image analysis tool for image registration, segmentation and visualisation.
Open-source R species distribution modelling package supporting multi-algorithm modelling, ensemble forecasting and model evaluation.
Password manager with an open-source core for syncing research accounts and common logins across devices.
Open-source Python auto-formatter for unifying the code style of research scripts and projects.
Classic sequence similarity search tool for aligning DNA, RNA and protein sequences.
Open-source system cleaner for clearing caches and temporary files and freeing disk space.
Free, open-source 3D creation software for 3D modelling, scientific visualisation and scene rendering.
Open-source Python interactive visualisation library for web charts and data apps.
Open-source R Markdown tool for writing books and long documents, suited to textbooks, theses and course materials.
Fast open-source short-read aligner for mapping DNA reads to reference sequences.
Open-source Python life cycle assessment framework for reproducible, programmatic LCA analysis.
Open-source low-code platform for internal management systems, forms, database apps and approval workflows.
Powerful batch renaming tool for organising field photos, experiment images, PDFs and data files.
Open-source short-read aligner for mapping high-throughput sequencing reads to a reference genome.
Free, open-source e-book and document manager for organising textbooks, manuals, PDFs and e-books.
Open-source chemical kinetics and thermodynamics tool for combustion, reactor and reaction kinetics simulation.
Free/community option for clinical and survey data collection; to be listed with caution.
Free platform for text annotation and literary text analysis, suited to humanities research and close reading.
Free, open-source image analysis software from the Broad Institute for high-throughput cell image analysis.
Open-source 3D globe and 3D geospatial visualisation tool for remote sensing, terrain and 3D city display.
Open-source landscape connectivity model that uses circuit theory to simulate species movement and gene flow.
Open-source data portal platform for open data, data catalogues and institutional data publishing.
Open-source 3D point cloud processing software for LiDAR point clouds, forest structure and 3D scene analysis.
Python interface to Stan for running Bayesian models within Python workflows.
Open-source structural mechanics finite element solver for linear, nonlinear and thermo-mechanical analysis.
Open-source encrypted collaborative document platform for secure writing, spreadsheets, whiteboards and teamwork.
Free, open-source disk health monitor for checking drive status, temperature and SMART data.
Open-source image and video annotation tool for object detection, segmentation and computer vision dataset creation.
Open-source complex network visualisation platform, widely used for biological networks and systems biology.
Open-source RAW photo processing software for field survey photos and post-processing research images.
Open-source Python parallel computing tool for larger datasets and distributed data analysis.
Open-source research data versioning tool for dataset tracking, sharing and reproducible research.
Open-source research data repository for data publishing, citation, sharing and institutional data management.
Online tool for making clear charts and maps, suited to quickly producing shareable data graphics.
Free, open-source SQLite database viewer and editor for lightweight database management.
Free, open-source database management tool for connecting to PostgreSQL, MySQL, SQLite and other databases.
Open-source data transformation tool for SQL data modelling, data warehouses and reproducible data pipelines.
Open-source health data management platform for public health data collection, analysis and visualisation.
Free flowchart and diagram tool for research roadmaps, model framework diagrams and course illustrations.
Open-source data back end and content management platform that turns databases into APIs and admin interfaces.
Open-source text annotation tool for building text classification, sequence labelling and relation extraction datasets.
Open-source local full-text search tool that searches inside PDF, Word and text files.
Open-source documentation website framework for project docs, tool guides and research software websites.
Automated build and deployment tool with an open-source core, suited to containerised CI/CD pipelines.
Crop model decision support system with growth simulation models for 40+ crops.
Open-source local analytical database for quickly analysing CSV, Parquet and medium-to-large tabular data.
Free, open-source duplicate file finder for cleaning up duplicate papers, images, data and backups.
Free, open-source encrypted backup tool for regular backups of project data, paper files and important materials.
Open-source data and model versioning tool for tracking research data, models and experiment files.
Open-source chemical process simulation software for steady-state and dynamic processes and thermodynamic calculations.
Easy-to-use open-source OCR Python tool supporting multilingual text recognition in images.
Free, open-source traffic simulation software for urban roads, public transport and multimodal mobility.
Open-source electronic lab notebook and lab management system for experiment records and archiving.
Open-source multiphysics finite element software for thermal, electrical, structural and coupled problems.
Open-source bioinformatics toolkit for sequence format conversion, alignment, translation and basic sequence analysis.
Open-source web form tool for filling in ODK / XLSForm forms online and collecting data.
Open-source R package for MaxEnt / niche model parameter tuning and spatial cross-validation.
Open-source tool for organising and tiling large point clouds, suited to publishing LiDAR data for web viewing.
CDC's public-domain public health statistics tool for epidemiological surveys and data analysis.
Open-source real-time collaborative document tool for meeting notes, classroom co-writing and team drafts.
Open-source Markdown + SQL data reporting tool for building maintainable web-based analysis reports.
Open-source hand-drawn-style diagramming tool for concept maps, classroom explanations and sketching paper ideas.
Free, open-source sequencing QC tool for checking FASTQ quality and generating reports.
Open-source finite element computing platform for partial differential equations, numerical simulation and scientific computing research.
Open-source audio and video processing tool for format conversion, compression, cutting, frame extraction and batch processing.
Open-source visual dataset analysis tool for inspecting image data, label quality and model predictions.
Open-source scientific image analysis platform for SEM, TEM, AFM and microscopy image measurement.
Windows right-click file conversion tool for batch converting images, audio, video and documents.
Cross-platform open-source screenshot and annotation tool for quick captures, arrow markup and teaching feedback.
Open-source font editor for font creation, symbol fonts and adjusting fonts in research graphics.
Open-source remote sensing processing framework for long Landsat / Sentinel-2 time series analysis.
Open-source self-hosted code hosting platform for lightweight Git services and community collaboration.
Open-source survey and user feedback tool for website surveys, user feedback and collecting research questionnaires.
Free, open-source parametric CAD software for modelling lab equipment, structural parts and engineering schematics.
Open-source finite element software for partial differential equations, engineering simulation and teaching scientific computing.
Folder sync and backup tool for keeping papers, data, code and project files backed up in multiple locations.
Free, open-source laboratory information management system for managing samples and test data in small labs.
Free, open-source mind mapping tool for paper structure, research design and project planning.
Open-source bioinformatics analysis platform for visual workflows and reproducible analysis.
Open-source multi-agent modelling platform for spatially explicit ecological, urban and complex system simulation.
Free, open-source project scheduling software for planning research tasks and making Gantt charts.
Open-source robot simulation platform for simulating robots, sensors, mechanical systems and automation scenarios.
Foundational library for GIS and remote sensing data processing, reading, writing and converting a wide range of raster and vector formats.
Open-source topic modelling and text vector tool for corpus analysis, Word2Vec and text mining.
Free, open-source spatial data analysis software for getting started with spatial autocorrelation, LISA and spatial regression.
Open-source Python geospatial data analysis library for vector data processing and spatial analysis.
Open-source geospatial server for publishing WMS, WFS and web map services.
Free, open-source network visualisation software for complex relationship networks and co-occurrence network analysis.
Open-source PostScript / PDF processor for PDF conversion, compression and printing workflows.
Graphical OCR tool for Tesseract, suited to recognising text in images and scanned documents.
Free, open-source image editor for post-processing paper images and bitmap editing.
Free, open-source version control system and the foundation for collaborating on code, scripts and paper projects.
Lightweight open-source self-hosted Git service for individual and small-team code management.
Free, open-source graphical Git tool that lets non-programmers manage GitHub projects.
Open-source code hosting and CI/CD platform for self-hosted Git, team code management and automation.
Open-source 3D finite element mesh generator for pre-processing device structures and multiphysics simulations.
MATLAB-style free, open-source numerical computing environment for teaching and algorithm validation.
Free GNU statistics software for SPSS data and basic statistical analysis.
Classic open-source command-line scientific plotting tool for script-driven chart generation.
Cloud remote sensing and geospatial analysis platform for large-scale remote sensing data processing.
Open-source DFT code based on Python and the PAW method, suited to materials electronic structure research.
Open-source model demo interface tool for quickly showcasing AI, machine learning and data processing models.
Open-source monitoring and dashboard tool for time series, server monitoring and data dashboards.
Open-source graph visualisation tool for automatically generating flowcharts, network diagrams and structural relationship diagrams.
Powerful open-source geospatial processing engine for large-scale GIS, remote sensing and terrain analysis.
Open-source data quality checking tool for data validation, rule checks and data pipeline quality control.
Lightweight open-source screenshot and annotation tool for paper revisions, software tutorials and web page captures.
Free, open-source econometrics software for regression analysis, time series and economic data modelling.
Open-source desktop GIS supporting common raster, vector and web map services.
Open-source scanning probe microscopy data analysis software for AFM and surface topography analysis.
Open-source interactive learning content tool for interactive quizzes, courseware, video questions and web teaching components.
Free, open-source video compression and conversion tool for course videos, experiment recordings and demo files.
Open-source online collaborative Markdown editor for co-writing and maintaining course notes.
Open-source Transformer model library for large language models, text classification, question answering and multimodal applications.
High-performance open-source static site generator for research homepages, blogs and tool documentation sites.
Open-source bioimage analysis platform for microscopy image processing and plugin-based analysis.
Open-source network analysis tool for complex, social and ecological networks.
Free, open-source genome browser for viewing sequencing alignments, variants and genome annotations.
Interactive machine-learning image segmentation tool that lets non-programmers perform pixel classification.
The industry standard for life science image analysis, supporting almost every microscopy image format.
Open-source command-line image processing tool for batch converting, compressing, cropping and compositing images.
Open-source semantic annotation platform for entities, relations, text classification and corpus annotation.
Open-source vector graphics editor (native SVG format); a free alternative to commercial vector software for creating and editing paper figures.
Open-source research data repository for institutional repositories, data publishing and research output management.
Open-source ecosystem services assessment model for land use change and natural capital analysis.
Open-source phylogenetic tree software for maximum-likelihood trees and model selection.
Open-source medical image processing toolkit for image segmentation, registration and volume data analysis.
Free, open-source medical image segmentation tool for interactive annotation of 3D images such as MRI and CT.
Free, open-source reference manager for BibTeX / LaTeX users.
User-friendly open-source statistical analysis software and one of the free alternatives to SPSS.
Free, open-source GUI statistics software supporting both classical and Bayesian statistics.
Open-source high-performance numerical computing and automatic differentiation library for machine learning, scientific computing and optimisation.
Open-source genome browser for displaying genomes, annotations, variants and sequencing data on the web.
Open-source 3D molecular structure viewer for presenting molecules and interactive web visualisation.
Free, open-source Markdown note-taking tool for research notes, project materials and long-term knowledge organisation.
High-performance open-source scientific computing language for numerical simulation, optimisation and large-scale computation.
Open-source tool for interactive books and course websites, suited to research reports, textbooks and executable documents.
Lightweight open-source Kanban tool for research tasks, personal projects and team progress tracking.
Fast open-source web maths renderer for formulas on websites, blogs and Markdown documents.
Free, open-source video editor for course videos, software demos and research promotional materials.
Open-source file and folder diff and merge tool for handling differences in code, text and configuration files.
Free, open-source password manager for storing email, database, server and research platform accounts.
Open-source large-scale spatial data visualisation tool for points, lines, trajectories and urban data.
High-level deep learning API for quickly building neural networks and teaching demos.
Open-source electronic design automation software for schematic design, PCB design and hardware prototyping.
Free, open-source visual data analytics platform for drag-and-drop data processing, modelling and automated workflows.
KNIME image analysis extension for image processing and automated data workflows.
Open-source field data collection platform for questionnaires, mobile forms and offline surveys.
Open-source file diff tool for reviewing changes to text, code and configuration files.
Open-source OCR / ATR system for historical documents and handwritten materials.
Free, open-source painting software for research schematics, hand-drawn figures and image annotation.
Open-source data labelling platform for image, text, audio, video and time series annotation.
Open-source research data management platform for experimental data, sample information and collaborative research projects.
Free, open-source scientific plotting and data analysis software for visualising experimental data.
Open-source molecular dynamics software for materials, molecular, granular and multiscale simulation.
Open-source grammar and spell checker for English writing, polishing and multilingual text checking.
Open-source LaTeX to XML/HTML converter for maths documents, web publishing and formula conversion.
Lightweight open-source web mapping library for building interactive web maps.
Free, open-source 2D CAD software for floor-plan-style structural drawings and experimental setup schematics.
Free, open-source office suite for documents, spreadsheets, presentations and basic data organisation.
Microsoft's open-source fast gradient boosting framework for large-scale tabular data modelling.
Open-source online survey system for self-hosted questionnaires, surveys and teaching evaluations.
Open-source habitat corridor analysis toolbox for wildlife connectivity and least-cost path analysis.
R package for building search strings in the early stage of systematic reviews and meta-analyses.
Open-source R mixed-effects modelling tools for hierarchical data, repeated measures and zero-inflated models.
Open-source bidirectional-link outliner for knowledge management, suited to research logs and organising ideas from literature.
Open-source lossless video cutter for trimming experiment recordings, screen captures and course videos.
Graphical LaTeX writing tool for papers, books and formula-heavy documents.
Classic open-source VLSI layout editor for IC layout teaching and open-source PDK flows.
Open-source maths animation tool for formula derivations, algorithm explanations and teaching videos.
Open-source collaborative paper writing tool for reproducible Markdown- and Git-based writing workflows.
Lightweight vector map processing tool for simplifying, converting and cleaning Shapefile/GeoJSON data.
Open-source Markdown slide tool for quickly building course and talk slides in Markdown.
Free, open-source conservation planning tool for protected area prioritisation and spatial planning analysis.
Open-source web maths rendering engine for research websites, course pages and online documentation.
Python's classic open-source plotting library for research charts, paper figures and data visualisation.
Open-source team chat and collaboration platform for a self-hosted research group communication environment.
Open-source species distribution modelling software for niche and habitat suitability modelling from presence data.
Free, open-source computer algebra system for symbolic computation, formula derivation and mathematical modelling.
Open-source Python 3D scientific visualisation tool for 3D fields, meshes and scientific data.
Open-source media file information viewer for checking video/audio codecs, resolution and bitrate.
Open-source file and folder comparison tool for viewing text, code and directory differences across platforms.
Free reference manager for organising literature, managing PDFs and inserting citations.
QGIS-oriented field data collection and sync tool suited to team field surveys.
Open-source tool for drawing flowcharts, sequence diagrams and Gantt charts from text syntax.
Open-source 3D mesh processing software for point clouds, mesh cleaning and 3D model post-processing.
Beginner-friendly R meta-analysis package for routine meta-analyses and forest plots.
Open-source data dashboard and visual analytics tool for quickly building data dashboards.
Full-featured R meta-analysis package for complex meta-analyses and reproducing papers.
Free, open-source meta-analysis software for ecology, evolutionary biology and research synthesis.
Free, open-source TeX distribution for Windows users typesetting LaTeX papers.
Open-source document parsing tool that converts PDFs, images and Office documents into structured Markdown / JSON output.
Open-source documentation site generator for software docs, tutorials and project manuals.
Open-source MKV multimedia muxing tool for video containers, audio/subtitle tracks and file organisation.
Open-source machine learning experiment management platform for recording model training, parameters, metrics and model versions.
USGS public-domain groundwater model for groundwater flow, aquifers and coupled surface water–groundwater simulation.
Open-source deep learning framework for medical imaging: segmentation, classification and model training.
Open-source agro-ecosystem model simulating crops, soil water, carbon and nitrogen cycling and the effects of management practices.
Open-source learning management system for course websites, online teaching, assignments and exams.
Open-source offline teaching server for running Moodle courses without internet access.
Open-source multiphysics finite element framework for developing complex coupled simulation codes.
Open-source microbial ecology software for amplicon sequencing, community structure and diversity analysis.
Open-source Bayesian phylogenetic inference software for trees from molecular sequences.
Free, open-source neuroimaging viewer for MRI, brain atlases and medical image visualisation.
Open-source bioinformatics report aggregator that combines results from FastQC and many other tools.
Open-source mass spectrometry data processing software for metabolomics, peak extraction, alignment and quantification.
Open-source tool in the Python ecosystem for viewing, annotating and analysing multidimensional scientific images.
Free, open-source scanning software that scans paper documents to PDF and runs OCR.
Open-source agent-based modelling platform for simulating ecosystems, population dynamics and complex systems.
Open-source Python network analysis library for graph theory, complex networks and relational data.
Open-source self-hosted cloud storage and collaboration platform for file sync, sharing and teamwork.
Open-source data analysis pipeline tool for bioinformatics and large-scale research workflow management.
Classic open-source natural language processing toolkit for teaching, corpus processing and getting started with text analysis.
Open-source no-code database tool that turns databases into Airtable-like online tables.
Open-source flow automation and IoT orchestration tool for sensor data, lab equipment and data stream processing.
Free, open-source text and code editor for viewing CSV, JSON, logs, configuration files and scripts.
Open-source Python JIT compiler for accelerating numerical and loop-heavy code.
Free, open-source screen recording and live streaming tool for recording lectures, software demos and experimental procedures.
Local Markdown knowledge base tool for research notes, project management and long-term knowledge building.
Open-source OCR and layout recognition tool for Linux, suited to extracting text from scanned documents.
Open-source command-line tool that adds a searchable OCR text layer to scanned PDFs.
Open-source mobile data collection toolkit for offline questionnaires, field surveys and form management.
Open-source mobile data collection server for ODK forms, survey projects and offline data sync.
Open-source Android data collection app for offline questionnaires, field surveys and mobile form filling.
Open-source self-hosted form and survey tool for collecting survey data and feedback.
KDE's open-source PDF reader and annotation tool for reading, marking up and organising literature.
Open-source microscopy image data management platform for storing, browsing and sharing large-scale bioimages.
Free desktop office suite and open-source collaborative document solution compatible with Word, Excel and PowerPoint.
Open-source online Office collaboration service for self-hosted collaborative editing of Word, Excel and PowerPoint files.
Open machine learning model exchange format for model conversion, deployment and cross-framework use.
Open-source chemical file format conversion and molecular data processing tool.
Open-source online course platform for large-scale courses, MOOCs and teaching websites.
Open-source journal publishing management system for open journal submission, peer review, editing and publishing workflows.
Open science project management platform for project materials, preregistration, data sharing and collaboration.
Open-source 3D data processing library for point clouds, meshes, 3D reconstruction and geometric analysis.
Open-source research data and laboratory information management platform for samples, experiments and datasets.
Free, open-source interactive whiteboard software for classroom explanations, presenting paper ideas and recording lessons.
Open-source computer vision library for image processing, video analysis, object detection and vision algorithm development.
Open-source drone imagery processing tool that produces orthophotos, point clouds, DEMs and 3D models.
Open-source laboratory information management system for public health labs, testing workflows and sample management.
Free, open-source CFD toolbox for numerical simulation of fluid dynamics, heat transfer and multiphase flow.
Lightweight open-source desktop GIS for viewing, editing and analysing vector spatial data.
Automated RTL-to-GDS flow built on open-source EDA tools, suited to open-source chip teaching and validation.
Powerful open-source web GIS mapping library for complex interactive maps and spatial data display.
Free, open-source life cycle assessment software for LCA, carbon footprints and environmental impact assessment.
Open-source GUI software for meta-analysis in ecology and evolutionary biology.
Open-source Modelica modelling and simulation environment for complex system dynamics.
Open-source ecological niche modelling tool for species distribution prediction and habitat suitability analysis.
Open-source mass spectrometry data analysis tool for proteomics, metabolomics and LC-MS data processing.
Open-source project management platform for task boards, Gantt charts, research collaboration and team planning.
Free, open-source collaborative qualitative data analysis software for interview coding, text annotation and humanities research.
Free, open-source data cleaning tool for tidying messy tables and standardising text in bulk.
Open-source parametric 3D modelling tool for designing lab equipment, parts and 3D-printable models.
Free, open-source video editor for simple course videos, demo videos and short promotional films.
Open-source biobank management system for specimen collection, storage, tracking and research data management.
Open-source hyperparameter optimisation framework for tuning machine learning models and experiment search.
Google's open-source optimisation toolkit for linear programming, integer programming, routing and scheduling problems.
Visual machine learning and data mining tool for exploratory analysis without writing code.
Open-source remote sensing image processing toolbox supporting large-image processing, classification, segmentation and feature extraction.
Self-hostable open-source LaTeX collaboration platform for team papers and template-based writing.
Baidu PaddlePaddle's open-source OCR toolkit for Chinese documents, scanned PDFs, tables and layout recognition.
Open-source DataFrame validation tool for pandas data quality checks and table rule validation.
Open-source document conversion tool for converting between Markdown, Word, LaTeX, HTML and more.
Pandoc cross-referencing filter for numbering and referencing figures, equations and tables.
Open-source document archiving and OCR management system for organising scans, PDFs and document libraries.
Parallel tool that builds codon alignments of protein-coding DNA from protein alignments, as preprocessing for molecular evolution analysis.
Open-source 3D scientific data visualisation software for numerical simulations, flow fields and 3D results.
Free scientific statistics software often used in ecology, palaeontology and multivariate statistical analysis.
Open-source Python crop simulation framework including implementations of WOFOST and other crop models.
Open-source point cloud processing library for LiDAR, 3D point clouds and terrain data.
Free, open-source PDF page organiser for reordering, splitting, merging and rotating PDF pages.
An entry point to online PDF tools, for people who want to find PDF processing features directly in the browser.
Open-source content extraction toolkit for complex PDFs, suited to parsing papers, tables, formulas and layouts.
Split, merge, rotate and extract PDF pages — free and ad-free.
Open-source design and prototyping tool for interface mockups, vector graphics and research software prototypes.
Widely used open-source PostgreSQL administration tool for viewing, editing and maintaining databases.
Lightweight open-source image editor for simple retouching, annotation and bitmap processing.
Open-source text-based diagramming tool for UML, flowcharts, architecture diagrams and method workflow diagrams.
Open-source interactive Python visualisation library for web charts, dashboards and exploratory analysis.
Lightweight open-source back end for small personal tools, databases, authentication and file management.
High-performance open-source data processing library for fast handling of large tabular data.
Open-source 3D geometry visualisation tool for point clouds, meshes, curves and scientific computing results.
Open-source spatial database extension for PostgreSQL for managing and analysing geospatial data.
Open-source relational database for research data management, spatial data and project back ends.
Open-source web point cloud viewer for publishing and browsing large 3D point clouds.
Open-source data workflow tool for Python data pipelines, task scheduling and automated analysis.
Open-source code formatter for unifying the format of web code, Markdown, JSON and configuration files.
Open-source creative coding environment for interactive visualisation, teaching demos and generative graphics.
Free, open-source project management software that can replace some Microsoft Project use cases.
Open-source time series forecasting tool for modelling trends, seasonality and holiday effects.
Open-source mass spectrometry data conversion and processing tool for mzML conversion, data extraction and pipeline preparation.
Open-source low-code machine learning library for fast modelling, comparison and evaluation.
Open-source Python kriging tool for geostatistical interpolation and spatial prediction.
Open-source materials informatics Python library for crystal structures, band structures and materials data processing.
Open-source Bayesian statistical modelling tool for MCMC, hierarchical models and uncertainty analysis.
Open-source molecular structure visualisation tool for displaying proteins, ligands and 3D molecular structures.
Open-source Python optimisation modelling tool for linear, nonlinear and mixed-integer optimisation problems.
Open-source Python spatial statistics library for spatial autocorrelation, spatial regression and regional data analysis.
NumPy / Matplotlib / SciPy / Pandas cover every scenario in research data processing.
Open-source deep learning framework for neural networks, computer vision, natural language processing and research model development.
Open-source Python 3D visualisation library for meshes, point clouds, volume data and simulation results.
Open-source mobile field data collection tool from the QGIS ecosystem for field surveys and spatial data capture.
Full-featured open-source desktop GIS that reads and writes many raster and vector formats through GDAL/OGR.
Open-source microbiome data analysis platform for amplicon sequencing and community analysis.
Open-source command-line PDF tool for splitting, merging, encrypting, decrypting and repairing PDFs.
Open-source qualitative data analysis software for coding text, images, audio and video materials.
Open-source first-principles suite for simulating band structures, density of states and electronic structure of semiconductor materials.
Open-source research writing and reproducible reporting tool supporting R, Python, Julia and Markdown.
Graphical open-source circuit simulation tool that can call back ends such as ngspice and Xyce.
Open-source digital pathology and bioimage analysis software for large tissue section images.
The academic standard for statistical computing and data visualisation; ggplot2 charts appear widely in top journals.
Open-source Python raster data library for GeoTIFF, remote sensing imagery and raster analysis.
Free, open-source data visualisation tool for non-programmers, suited to sketching complex charts.
Free, open-source RAW image processing software for high-quality photo adjustments and batch export.
Open-source command-line cloud storage sync tool for research data backup, server sync and bulk transfers.
Open-source cheminformatics toolkit for molecular features, similarity and drug screening data processing.
Open-source reproducible research platform for managing projects, data, code and computing environments.
Open-source agent-based modelling and simulation platform for social, ecological and complex system simulation.
Open-source HTML slide framework for web-based course presentations, academic talks and technical demos.
R package for literature screening, deduplication and visualisation in the early stage of systematic reviews and meta-analyses.
Image compression tool for shrinking web images and screenshots while comparing quality before and after.
Open-source geospatial raster tool for remote sensing and GeoTIFF processing in xarray workflows.
R package and web tool for visualising risk-of-bias assessments in systematic reviews and meta-analyses.
Open-source robotics software framework for robot control, sensor integration and automated experiment platforms.
Open-source qualitative data analysis tool in the R ecosystem for text coding and organising interview materials.
Free, open-source R integrated development environment widely used for research statistics and R Markdown writing.
Fast open-source Python linter and formatter for maintaining research scripts.
Specialist tool for terrain analysis and geomorphology research, with many DTM/DEM analysis modules.
Free, open-source mathematics system for symbolic computation, numerical computation and mathematical modelling.
Open-source tool for sequencing alignment files: viewing, sorting and statistics for SAM/BAM/CRAM.
Open-source satellite data library for reading meteorological satellite and remote sensing data and generating products.
Free, open-source scientific data analysis and plotting software with an Origin-like workflow.
Open-source Python image processing library for research image analysis, segmentation, filtering and feature extraction.
Classic open-source Python machine learning library for classification, regression, clustering and model evaluation.
Free, open-source scientific computing software for numerical computation, system simulation and engineering teaching.
Open-source screen recording and GIF tool for software tutorials, how-to demos and animated web images.
Open-source desktop publishing software for posters, brochures, report layout and print publishing.
Open-source laboratory information management system for samples, tests, results and lab workflows.
Open-source Python library for geometric objects, used for spatial geometry calculations and vector analysis.
Free, open-source video editor for lightweight course videos and processing experiment recordings.
Open-source EPUB e-book editor for e-book production, organising textbooks and editing document formats.
Simplified interface to ITK for Python medical image processing, segmentation, registration and volume data analysis.
Local-first block-based knowledge base tool, suited to Chinese-language research notes, bidirectional links and long-term material management.
Open-source time series machine learning tool for forecasting, classification, clustering and time series modelling.
Open-source 130 nm process design kit for open-source chip flows and IC teaching and research.
Open-source research workflow management tool for automating data analysis pipelines.
ESA's official remote sensing software, designed for Sentinel satellite data.
Free, open-source GUI statistics software for basic statistical analysis by non-programmers.
Lightweight open-source parametric CAD software for mechanical parts, sketches and simple 3D modelling.
Open-source natural language processing library for tokenisation, named entity recognition, text classification and information extraction.
Open-source documentation generator for Python projects, research software guides and technical documentation.
Lightweight open-source/public-domain embedded database for small projects and local data storage.
Open-source probabilistic programming language for Bayesian statistics, hierarchical models and MCMC inference.
Open-source Bayesian statistical modelling tool for hierarchical models, MCMC and complex statistical models.
Stanford's open-source NLP toolkit for multilingual text processing, tokenisation and syntactic parsing.
Open-source Python statistical modelling library for regression, time series, ANOVA and statistical inference.
Open-source PDF tool platform supporting merging, conversion, compression, OCR, encryption and more.
Open-source headless CMS for website content back ends, document libraries and API management.
Open-source Python data app framework for quickly building small research tools and model demo interfaces.
Open-source subtitle creation and editing tool for course videos, interview videos and teaching materials.
Firebase alternative with an open-source core, for databases, authentication, storage and real-time apps.
Free/open-source component platform for computer vision projects, suited to image annotation and model management.
Open-source watershed hydrology and water quality model for runoff, erosion, nutrient cycling and watershed management research.
Open-source Python symbolic computation library for formula derivation, algebra and maths teaching.
Open-source multi-device file sync tool for syncing research files between computers, servers and mobile devices.
Free, open-source qualitative text coding tool for interviews, open-ended responses and document annotation.
Open-source agile project management tool for task collaboration, boards and iteration management.
Google's open-source machine learning framework for deep learning, model training and deployment.
Open-source OCR engine supporting multilingual text recognition and command-line use.
Open-source TeX distribution for typesetting LaTeX papers, theses and formula documents.
Free, open-source LaTeX editor for papers, theses and formula-heavy documents.
Open-source low-code app builder for database interfaces, admin tools and data dashboards.
Open-source hierarchical note-taking and personal knowledge base tool for long-term project records and organising materials.
Free, open-source research material manager for organising archival photos, historical sources and scanned images.
Modern open-source typesetting system that can serve as a lightweight alternative to LaTeX.
Free, open-source bioinformatics desktop software for sequence analysis, annotation, alignment and basic omics processing.
Open-source R community ecology statistics package supporting NMDS, CCA, RDA, diversity and community analysis.
Open-source (GPL) scientific plotting software that exports publication-ready 2D charts as PDF and SVG.
Open-source large-scale hydrological model for simulating land surface hydrology, runoff and energy balance.
Open-source scientific data visualisation software for large simulation results, 3D fields and mesh data.
Free code editor for developing Python, R, Markdown, web and research scripts.
Free, open-source media player for video, audio, experiment recordings and many file formats.
Free molecular visualisation and analysis tool for viewing molecular dynamics trajectories, protein structures and simulation results.
Free web-based text analysis and visualisation tool for getting started with word frequency, co-occurrence and text mining.
Open-source build of VS Code for research users who want an open-source code editor.
Open-source 3D scientific visualisation toolkit for medical, engineering, flow field and 3D data display.
Open-source R Shiny species distribution modelling platform for reproducible niche modelling workflows.
Classic free, open-source machine learning GUI tool for teaching, classification, clustering and model comparison.
Open-source Trello-style Kanban tool for task cards, project collaboration and tracking research progress.
Open-source geospatial analysis toolbox for terrain, hydrology, LiDAR and raster analysis.
Open-source knowledge base platform for structured data, knowledge graphs and linking research materials.
Open-source disk usage analyser for finding large files, clearing project caches and tidying data drives.
Free, open-source file and folder comparison tool for comparing code, tables, configuration files and text changes.
Classic crop growth simulation model often used for yield potential and climate impact research.
Lightweight open-source CI automation tool for code testing, build and deployment pipelines.
Open-source gradient boosting machine learning library for tabular data modelling and predictive analysis.
Open-source handwritten notes and PDF annotation tool for marking papers, reading literature and classroom board work.
Open-source parallel circuit simulator for large-scale circuits and high-performance SPICE-style simulation.
Free research data and software publishing platform that assigns DOIs to data, code and paper materials.
Free, open-source Markdown academic writing tool for paper drafts and literature notes.
Open-source static site generator for personal research websites, project documentation and tool showcase pages.
Free, open-source reference manager with one-click capture from the browser, multi-device sync and a Word plugin.
Open-source BibTeX enhancement plugin for Zotero, suited to LaTeX, Markdown and Quarto writing workflows.
Open-source OCR plugin for Zotero that turns scanned PDFs into searchable references.
Open-source team communication tool for research group discussions, project collaboration and asynchronous communication.
Order: when searching, name matches come first; otherwise in-house and highlighted tools first, then by name.