Stars
Tools for making beautiful & useful command line interfaces
#1 PDF Application on GitHub that lets you edit PDFs on any device anywhere
Bayesian mixed-effect model to test differences in cell type proportions from single-cell data, in R
Wrappers for dealing with and plotting epigenomics data
R package implementation of Milo for testing for differential abundance in KNN graphs
R package for computation of (adjusted) rand-index and other such scores
Technology-invariant pipeline for spatial omics analysis that scales to millions of cells (Xenium / Visium HD / MERSCOPE / CosMx / PhenoCycler / MACSima / etc)
Rcpp Machine Learning: Fast robust NMF, divisive clustering, and more
A unified interface to immune deconvolution methods (CIBERSORT, EPIC, quanTIseq, TIMER, xCell, MCPcounter) and mouse deconvolution methods
The 30 Days of Python programming challenge is a step-by-step guide to learn the Python programming language in 30 days. This challenge may take more than 100 days. Follow your own pace. These vide…
Systematically learn and evaluate the latent geometry of high-dimensional data, with a focus on scRNAseq analysis
Methods to discover gene programs on single-cell data
Creating beautiful plots of data maps
Python package to find communication-driven intercellular flows from single-cell RNA-sequencing and spatial transcriptomics data.
R package that automatically classifies the cells in the scRNA data by segregating non-malignant cells of tumor microenviroment from the malignant cells. It also infers the copy number profile of m…
A pathtracer for R. Build and render complex scenes and 3D data visualizations directly from R
An R package for visualising cell-cell interactions
High dimensional weighted gene co-expression network analysis
R toolkit for inference, visualization and analysis of cell-cell communication from single-cell and spatially resolved transcriptomics
Generate high quality, publication ready visualizations for single cell transcriptomics data.