awesome-scientific-writing
Writing toolkit
A curated collection of tools and resources for scientific writing beyond LaTeX
A curated list of awesome tools, demos and resources to go beyond LaTeX
777 stars
23 watching
47 forks
last commit: over 1 year ago
Linked from 5 awesome lists
awesomeawesome-listjupyter-notebookmarkdownorg-modepandocrestructuredtext
Awesome Scientific Writing / Word Processors | |||
| Marktext | 47,909 | about 1 year ago | Markdown text editor |
| R Studio | 4,716 | 11 months ago | IDE for R |
Awesome Scientific Writing / Word Processors / R Studio | |||
| bookdown | 3,811 | 11 months ago | R package to facilitate writing books and long-form articles, reports with R Markdown |
| R Markdown | R package to write R next to Markdown | ||
Awesome Scientific Writing / Word Processors | |||
| Vim | Command line text editor | ||
Awesome Scientific Writing / Word Processors / Vim | |||
| fzf-bibtex | 130 | over 1 year ago | BibTeX source with Vim integration which uses fzf (a fuzzy finder implemented in Go) |
| vim-pandoc | 957 | over 1 year ago | Pandoc integration and utilities for Vim |
| vim-pandoc-syntax | 424 | over 1 year ago | Pandoc syntax highlighting for Vim |
Awesome Scientific Writing / Word Processors | |||
| Visual Studio Code | Popular IDE with Markdown support | ||
Awesome Scientific Writing / Word Processors / Visual Studio Code | |||
| Markdown All in One | 2,942 | over 1 year ago | Extension for enhanced Markdown support in VSCode, such as preview and auto completion to name a few |
| Markdown Preview Enhanced | 4,150 | about 1 year ago | Pandoc integration and utilities |
Awesome Scientific Writing / Word Processors | |||
| Zettlr | Markdown editor which integrates CSL, BibLaTeX, Pandoc and many other tools | ||
Awesome Scientific Writing / Bibliography | |||
| Citation Style Language (CSL) styles | Crowdsourced repository with over 9000 free CSL citation styles and an online editor to create new ones | ||
| JabRef | Open source bibliography reference manager | ||
| Zotero | FOSS tool to collect, organize, cite, and share research | ||
Awesome Scientific Writing / Bibliography / Zotero | |||
| Better BibTeX for Zotero | Enhanced BibTeX / BibLaTeX integration for Zotero | ||
| ZotFile for Zotero | Enhanced PDF file management for Zotero | ||
Awesome Scientific Writing / Bibliography | |||
| ZoteroBib | Online bibliography reference manager | ||
Awesome Scientific Writing / Illustrations | |||
| app.diagrams.net | Open source, online, desktop and container deployable diagramming software named draw.io | ||
| graphviz | Visualization software for graphs and networks which uses a domain-specific DOT language | ||
| Mermaid Live Editor | Define simple diagrams instead of drawing them | ||
| Vega Lite | Define charts and more complex diagrams | ||
| PlantUML | Define UML diagrams instead of drawing them | ||
Awesome Scientific Writing / Converters and Filters | |||
| Cicero | Python package which renders HTML presentations from Markdown source using remark or reveal.js | ||
| docutils | Python package which can convert reStructuredText into various formats and provides command-line tools to do it | ||
| Jupyter Book | A static site generator which converts a collection of CommonMark, MyST markdown and Jupyter notebooks into a HTML website | ||
| MyST | Markedly Structured Text, a superset of CommonMark markdown with reStructuredText like features | ||
| nbconvert | Convert Jupyter notebooks into presentations, PDF, HTML, Markdown, reStructuredText and more | ||
| pandoc | Haskell library for converting from one markup format to another, and a command-line tool that uses this library | ||
Awesome Scientific Writing / Converters and Filters / pandoc | |||
| Academic Markdown | 350 | over 4 years ago | Python wrapper over Pandoc with specialized extensions to parse certain elements, making it a superset of Pandoc Markdown flavour |
| Pandoc filters | 35,082 | 11 months ago | List of addons to pandoc which implement extra features such as citations and cross-references |
| Panflute | Pythonic alternative to John MacFarlane's pandocfilters | ||
Awesome Scientific Writing / Converters and Filters | |||
| Quarto | Compile R Markdown, and Jupyter Notebooks to PDFs, Slides and Websites. Supports R, Python, and Julia | ||
Awesome Scientific Writing / Spell Checking and Linting | |||
| GNU Aspell | Command line spell checker | ||
| Hunspell | Command line spell checker | ||
| LanguageTool | Open source grammar, style and spell Checker | ||
| LanguageCheck | 98 | over 2 years ago | Analyses scientific LaTeX papers, suggesting improvements from a list of common mistakes/ambiguities, tense consistency, a vs. an, spell check, and paragraph topic sentences |
| Markdown lint tool | 1,831 | almost 2 years ago | Markdown linter |
| proselint | 4,368 | over 1 year ago | Linter for prose |
| remarklint | 949 | over 1 year ago | Markdown linter |
| restructuredtext-lint | 171 | over 3 years ago | reStructuredText linter |
| textlint | Pluggable linting tool for text and Markdown | ||
| textidote | Spelling, grammar and style checking on LaTeX documents | ||
| Vale | 4,553 | 11 months ago | Free, open-source linter for prose built with speed and extensibility in mind |
| write-good | 4,964 | 11 months ago | Naive linter for English prose |
Awesome Scientific Writing / Templates / Articles | |||
| Pandoc Markdown-LaTeX Boilerplate | 101 | over 7 years ago | Demonstrate how to integrate Pandoc with an existing LaTeX template which requires some boilerplate code (i.e. LaTeX preamble), thus avoiding the dependency |
| scientific-markdown | 46 | over 10 years ago | Example for use of Markdown for scientific publications using Pandoc and |
| Steve's R Markdown Templates | 908 | about 4 years ago | Academic manuscript, memos, Beamer presentation, syllabus and CV |
Awesome Scientific Writing / Templates / Presentations | |||
| pandoc-starter | 533 | over 4 years ago | Templates for articles, Beamer presentations etc. using Markdown files and Makefiles for getting started with Pandoc |
| slides | 3 | almost 9 years ago | Demo for generating presentations using Pandoc |
Awesome Scientific Writing / Templates / Books | |||
| bookdown-demo | 514 | about 1 year ago | Minimal example of a book based on R Markdown and bookdown |
| Eisvogel | 6,300 | about 1 year ago | Clean academic pandoc LaTeX template |
| Template for writing a PhD thesis in Markdown | 1,214 | over 2 years ago | Clean organization of files to provide a framework for writing a PhD thesis in mostly Markdown with a little bit of LaTeX, and compiled with Pandoc |
Awesome Scientific Writing / Tutorials | |||
| 3 frameworks into one — Write your next paper with R Studio! | Article provides an overview to a workflow that combines R Markdown (bookdown), Zotero (literature management), and Notion (note taking on research papers) to write academic papers | ||
| Book on Riemann solvers | 267 | almost 3 years ago | This example uses a custom template and shows how to store your notebooks with no output (for version control) while automatically executing them before running , so that PDF and HTML versions include the output |
| Dennis Tenen and Grant Wythoff | Sustainable Authorship in Plain Text using Pandoc and Markdown | ||
| Heads up! Quarto is here to stay. Immediately combine R & Python in your next document | Summary of the capabilities of Quarto, why to use it, and how it compares to R Markdown. Also contains tips for M1 Mac users on how to fix a common problem with reticulate | ||
| Katrin Leinweber's Ph.D. thesis | 45 | about 4 years ago | Automated work flow involving several tools, but primarily Pandoc, and Academic Markdown |
| Scott Selisker | Plain Text Workflow for Academic Writing with Atom | ||
| Teaching and learning with Jupyter | 438 | over 2 years ago | Book written in R Markdown, bookdown and also rendered as HTML, PDF and EPUB |
| Write your dissertation in RMarkdown | Step-by-step guide on creating a complex pdf document, including text, figures, references, images, formatting, and more | ||
| Writing scientific papers for ACPD using Emacs Org-mode | Detailed tutorial on authoring a paper by seamlessly integrating with LaTeX commands within Org-mode | ||
Awesome Scientific Writing / Other Lists | |||
| Awesome Jupyter | 4,083 | 11 months ago | |
| Awesome LaTeX | 1,419 | over 1 year ago | |
| Awesome Markdown | 813 | about 1 year ago | |
| Delightful Open Science | |||
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