79 private links
Alternative to mermaid, plantuml, graphviz. Can be used in quarto.
Is a single golang cli binary at the core which I much (much) prefer to the javascript-dependent client-side nature of mermaid.
Otherwise, the DSL looks competent and fairly descriptive.
Supports displaying markdown, code, images, icons, or latex formulas in the diagrams.
Could be a good choice for quick diagrams!
A new markup-based typesetting system that is powerful and easy to learn.
This is very exciting. It actually allows some fairly advanced constructs and environments but keeps its (basic) syntax at a similarly simple level such as markdown.
It even has a 'code mode' in which you can call arbitrary expressions and pass arguments just doing #myfunc(myargument:true, another: 12)
. And those are then programmed in typst
language (which I have not looked into yet). And even most basic markup is done in those so they are definitely powerful!
Basically wants to be LaTeX 2.0-ish. Does not yet have the same advanced page-orphan algorithms etc however. Can be used in quarto from 1.4 as markup language!
An academic publishing workflow with automatic doi -> citation processing and (I think?) writing in markdown then publishing as pdf/docx/html documents.
Similar to quarto in other words, but taking a bit of a different approach. Also has a sister-repository with an AI assistant for the publishing process which seems like a neat tool to try.
Another terminal-based slide presentation tool. This one seems nice in that it simply uses markdown and every horizontal rule marks a new slide. Simple, efficient, nice.
Also has a simple guide on how to export slides to pdf on the page.
Very simple, basic functionality slide software. Has a couple of ..interesting features like
Slides with exuberant amount of lines or characters produce rendering glitches intentionally to prevent you from holding bad presentations.
but in general seems quite nice
Zotero plugin that links your Markdown database to Zotero. Jump directly from Zotero Items to connected Markdown files. Automatically tags Zotero Items so you can easily see which papers you've made notes for
“Graphviz” package produced by Sebastian Bank (available here: https://pypi.org/project/graphviz/) can be used to produce “Preferred Reporting Items for Systematic Reviews and Meta-Analyses (PRISMA)” (Moher et al., 2009) flow chart.
Wonderful for those cases where you need the full python environment at your disposal.
Enable rendering cricit-markup in your quarto output.
Could be really useful for a ms-word -less authoring pipeline.
Bibtex parser for Python 3. Parse bibtex, do whatever you want with it now as a python data structure.
One example of doing bibtex -> pandas dataframe is here
A pretty flexible and interesting approach to organizing data science projects. Combined with: https://www.earthdatascience.org/courses/intro-to-earth-data-science/open-reproducible-science/get-started-open-reproducible-science/best-practices-for-organizing-open-reproducible-science/ for more academic-oriented ideas,
should give a rough guide to finding good organizational structures.
Complete list of BibTeX entry types including examples for: ✓article ✓book ✓inbook ✓conference
Good little explanations for each type as well. Additional information concerning biblatex here: https://tex.stackexchange.com/questions/639734/canonical-list-of-bib-entry-types
Contains live graphs (using jupyter kernels), or can even include full jupyter notebooks and allow you to edit them. Contains what they call 'rabbit-hole' links which allow a reader to drill down into definitions/examples/sources.
Seems pretty neat - though I would need it to be included in Quarto (thus Pandoc) to be of real use.
Frontend for papis, allowing you to search, sort, browse through your references.
Has some advanced features for copying stuff to clipboard, sending things to vim, and is configurable with its mappings (which somewhat mimic vim to begin with).
Early development still (no support for whoosh database e.g.) but very promising!
A way to separate multiple table or figure environments in latex:
\newcommand{\beginsupplement}{%
\setcounter{table}{0}
\renewcommand{\thetable}{S\arabic{table}}%
\setcounter{figure}{0}
\renewcommand{\thefigure}{S\arabic{figure}}%
}
Then, when your supplement starts, just add the line:
\beginsupplement
Voila! Instant “Table S1” and “Figure S1”. Enjoy.
Another bibliography manager for the command line. This one seems fairly nice: It keeps everything in plain-text (unlike papis), seems fairly customizable and extensible (unlike bibman), has some quality of life features like doi/arxiv import, git versioning and a plugin system.
Having used it a little - it is fairly nice, except for two niggling issues: with around 1000 library entries it becomes pretty sloow and it does not allow for advanced query syntax, even though it seems like it would support it. Author search only search in last names and you can not use any boolean logic to search for anything not tagged a certain way for example. These two issues are pretty major for larger libraries.
Another cli bibliography/library manager. Has a simple cli, can import/export to bibtex, link files to citations, be invoked by neovim telescope.
It seems alright but less well developed/smaller in scope than some other cmdline bib managers. Unfortunately uses plain regex for bibtex parsing which makes me doubtful for its robustness.
How to use your own Nextcloud instance to synchronize your Zotero Library using Zotero's WebDAV Synchronization Feature.
Explains some nice details which would otherwise definitely stand in the way of easy sharing (e.g. individual folder sharing, webdav credentials, paths, and so on). Very useful!
A comment on pdf annotation on unix systems. Go to the link for follow-up links to spacemacs and the layer in question:
Zathura is amazing, but if you want to take notes in a more or less zathura style pdf-editor (more than just reader), then I would recommend you to check out Spacemacs with its pdf layer. It has all features that Zathura has, but it adds very strong annotation features, it is mind blowing. You have a pdf-editor right within your vim-like editor. With org-noter you can send annotations directly to your org files (the video uses Emacs bindings, but the Spacemacs project uses a perfect Vim rebuild within Emacs). Spacemacs additionally comes with the amazing org-mode for organizing your notes. Due to the Spacemacs layer system, it is very easily installed (I assume you are on a GNU/linux type of system, as you are already using Zathura). There even exists an option to highlight using the keyboard only, although in this case I find it easier to use the mouse.
An exhaustive book, free and available online, on publishing workflow.
Getting, preparing, cleaning data. Exploratory analysis and modelling with regression. Creating reproducible documents with quarto. Seems really nice and good to delve into for data analysis.
Icon-font for all kinds of academic needs (pre-published, peer-reviewed, arxiv, etc). Mimics fontawesome setup but contains much fewer icons. Neat!