R Markdown Résumés and CVs

AnnData interoperability in R

Produce scientific figures in R that look exactly how you want

reticulate-free single cell format conversion

Pipeline framework for iteratively and reproducibly building and evaluating single cell atlases

Unified branding with a single YAML file

Scientific Inkscape: Inkscape extensions for figure resizing and editing

Light-weight Snakemake workflow for preprocessing and statistical analysis of RNA-seq data

RNA sequencing analysis pipeline using STAR, RSEM, HISAT2 or Salmon with gene/isoform counts and extensive quality control.

Lightweight lockfile for conda environments

Write reusable, composable and modular R code

Salt to configure Linux and Mac (x86_64, arm64) for the BBS

Friends don't let friends make certain types of data visualization - What are they and why are they bad.

A comprehensive guide on how to create beautiful scientific figures for technical publications, presentations, and posters

A data framework for biology. One API: lakehouse, feature store, lineage, workflows, notebooks, ontologies, LIMS, ELN.

Create equal-area histograms with 'ggplot2'

Simulate single-cell RNA-SEQ data using the Splatter statistical framework but implemented in python. In addition, simulate doublet cells and cells with shared gene-expression programs.

⛅ The right way to check the weather

A curated list of Quarto talks, tools, examples & articles! Contributions welcome!

Algorithmically create or extend categorical colour palettes

A flexible and extensible API for annotated 2D matrix data stored in multiple underlying formats.

The R Installation Manager

Onboarding materials for the Greene Lab

An open access book on scientific visualization using python and matplotlib

A function definition generator.

An inversion of renv for low effort reproducible R package libraries

An R package for developers to check user-supplied function arguments

minimal example implementations for bioinformatics workflow managers

Slinker offers a succinct and complementary method to visualise RNA-Seq data through superTranscripts.