fenghuijian

MySoftware

BCSS

A Bridge Connecting Seurat and Scanpy

cellassign

Automated, probabilistic assignment of cell types in scRNA-seq data

doc

learning document

fenghuijian

Config files for my GitHub profile.

fenghuijian.github.io

FindPairs

Finding the intercellular interaction pairs

garnett

Automated cell type classification

Harmony

Harmony framework for connecting scRNA-seq data from discrete time points

jupyter-resource-usage

Jupyter Notebook Extension for monitoring your own Resource Usage

MyPicGo

pySCENIC

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 regulatory networks and cell types from single-cell RNA-seq data.

scanpy

Single-Cell Analysis in Python. Scales to >1M cells.

seurat

R toolkit for single cell genomics

STAR

RNA-seq aligner

tqdm

A Fast, Extensible Progress Bar for Python and CLI

velocyto.R

RNA velocity estimation in R