Some Bugs need to be noted!!!!!

Tool set for processing fasta/fastq/table formated data. Usually they are perl scripts.

Some very useful records for me.

A list of scRNA-seq analysis tools

Useful bash one-liners for bioinformatics.

Convert between AnnData and SingleCellExperiment

A framework for clustering (CORE) and estimation of relationship between pairs of clusters (scGPS) from single cell data

Python - 100天从新手到大师

R

A series of perl and python scripts for generating genotypes from NGS fastq files from GTseq library sequencing.

Uniform Manifold Approximation and Projection

A Grammar of Animated Graphics

learning bioinformatics and programming through problem solving.

R package for the inference of cell fate bias from single-cell RNA-seq data.

A high-throughput and unbiased module for interpreting scRNA-seq data.

A deep generative model for gene expression profiles from single-cell RNA sequencing

Data and analysis scripts for our Embryo Timecourse paper.

The Composer of ggplots

dynverse is created to support the development, execution, and benchmarking of trajectory inference methods. 🌌

Single-cell RNA-seq Gene Expression Recovery

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 reg…

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

RNAseq analysis notes from Ming Tang

HiC-Pro: An optimized and flexible pipeline for Hi-C data processing

PHATE (Potential of Heat-diffusion for Affinity-based Transition Embedding) is a tool for visualizing high dimensional single cell data with natural progressions or trajectories.

ChIP-seq analysis notes from Ming Tang

Unix, R and python tools for genomics

A list of awesome applications, software, tools and other materials for Linux distros.

R Interface to Python