#single-cell-rna-seq (14 Repositories)

COMBINE-lab/alevin-fry

🐟 🔬🦀 alevin-fry is an efficient and flexible tool for processing single-cell sequencing data, currently focused on single-cell transcriptomics and feature barcoding.

scverse/squidpy

Spatial Single Cell Analysis in Python

satijalab/seurat

R toolkit for single cell genomics

GregorySchwartz/too-many-cells

Cluster single cells and analyze cell clade relationships with colorful visualizations.

enblacar/SCpubr

Generate high quality, publication ready visualizations for single cell transcriptomics data.

saezlab/liana-py

LIANA+: an all-in-one framework for cell-cell communication

scRNA-tools/scRNA-tools

Table of software for the analysis of single-cell RNA-seq data.

dtm2451/dittoSeq

Color blindness friendly visualization of single-cell and bulk RNA-sequencing data

cole-trapnell-lab/monocle3

scverse/liana-py

LIANA+: an all-in-one framework for cell-cell communication

samuel-marsh/scCustomize

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

kharchenkolab/conos

R package for the joint analysis of multiple single-cell RNA-seq datasets

kharchenkolab/numbat

Haplotype-aware CNV analysis from single-cell RNA-seq, ATAC-seq, and multiome

xuranw/MuSiC

Multi-subject Single Cell Deconvolution