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pcatools

PCAtools: everything Principal Components Analysis

perception

Utilizing single-cell omics from patients tumor to predict response and resistance.

phenograph

Subpopulation detection in high-dimensional single-cell data

phiclust

A clusterability measure for scRNA-seq data.

pisces

CZI Project Results

pisces-1

R package for Protein activity analysis of single-cell RNAseq.

projectils

Interpretation of T cell states using reference single-cell atlases

pycistopic

pycisTopic is a Python module to simultaneously identify cell states and cis-regulatory topics from single cell epigenomics data.

qin-cardosorodriguez-et-al

Scripts and notebooks for Qin & Cardoso Rodriguez et al

r-color-palettes

Comprehensive list of color palettes available in R ❤️🧡💛💚💙💜

r_codes_-

r_palantir_seuratextend

ra_scrna

Rheumatoid Arthritis project. single cell RNA sequencing data.

rcellmarker

Identify cell type based on cell markers for single cell squencing

rms_analysis

single cell data analysis for rms

rna-velocity-tutorial

Contains a Jupyter notebook tutorial for using RNA velocity on single cell RNA sequencing data.

rodent_wound

Companion repository for Abbasi, Sinha, Labit et al. 2020.

rogue

Assessing the purity of single cell population

rosmap_snrnaseq_pfc

rphenograph

Rphenograph: R implementation of the PhenoGraph algorithm

sc-shc

Significance analysis for clustering single-cell RNA-sequencing data

scanpy-tutorials

Scanpy Tutorials.

sccoda

A Bayesian model for compositional single-cell data analysis

sccrc_continuum

sccustomize

R package with collection of functions created and/or curated to aid in the visualization and analysis of single-cell data using R.

sceiad

Snakefile-based process to turn 1.4 million ocular cells into a unified meta-atlas

scenic

SCENIC is an R package to infer Gene Regulatory Networks and cell types from single-cell RNA-seq data.

scenicplus

SCENIC+ is a python package to build gene regulatory networks (GRNs) using combined or separate single-cell gene expression (scRNA-seq) and single-cell chromatin accessibility (scATAC-seq) data.

scent

Estimation of Single-Cell Potency with Single Cell Entropy

scgpt