single-cell topic

Community-curated list of software packages and data resources for single-cell, including RNA-seq, ATAC-seq, etc.

seandavi

PHATE (Potential of Heat-diffusion for Affinity-based Transition Embedding) is a tool for visualizing high dimensional data.

KrishnaswamyLab

Collection of public scRNA-Seq datasets used by our group

hemberg-lab

Reference mapping for single-cell genomics

theislab

🧬 Immunarch: an R Package for Fast and Painless Exploration of Single-cell and Bulk T-cell/Antibody Immune Repertoires

immunomind

zUMIs: A fast and flexible pipeline to process RNA sequencing data with UMIs

sdparekh

Bayesian haplotype-based mutation calling

luntergroup

MiXCR is an ultimate software platform for analysis of Next-Generation Sequencing (NGS) data for immune profiling.

milaboratory

Automatic Annotation on Cell Types of Clusters from Single-Cell RNA Sequencing Data

ZJUFanLab

pySCENIC is a lightning-fast python implementation of the SCENIC pipeline (Single-Cell rEgulatory Network Inference and Clustering) which enables biologists to infer transcription factors, gene regula...

aertslab