chip-seq 开源项目推荐（307 个）

crazyhottommy /ChIP-seq-analysis

Ming Tang 的 ChIP-seq 分析笔记

macs3-project /MACS

MACS -- Model-based Analysis of ChIP-Seq

deeptools /deepTools

Tools to process and analyze deep sequencing data.

maxplanck-ie /snakepipes

基于 snakemake 和 python 的可定制工作流程，用于分析 NGS 数据

galaxyproject /training-material

A collection of Galaxy-related training material

YuLab-SMU /ChIPseeker

🎯 ChIP peak Annotation, Comparison and Visualization

nf-core /chipseq

ChIP-seq 峰识别、QC 和差异分析流程。

vanheeringen-lab /seq2science

Automated and customizable preprocessing of Next-Generation Sequencing data, including full (sc)ATAC-seq, ChIP-seq, and (sc)RNA-seq workflows. Works equally easy with public as local data.

crazyhottommy /pyflow-ChIPseq

a snakemake pipeline to process ChIP-seq files from GEO or in-house

harbourlab /SparK

Publication quality NGS track plotting

CostaLab /reg-gen

Regulatory Genomics Toolbox: Python library and set of tools for the integrative analysis of high throughput regulatory genomics data.

kundajelab /chipseq_pipeline

AQUAS TF and histone ChIP-seq pipeline

nf-core /differentialabundance

Differential abundance analysis for feature/ observation matrices from platforms such as RNA-seq

epigen /enrichment_analysis

A Snakemake workflow and MrBiomics module for performing genomic region set and gene set enrichment analyses using LOLA, GREAT, GSEApy, pycisTarget and RcisTarget.

epigen /dea_limma

A Snakemake workflow and MrBiomics module for performing and visualizing differential analyses of NGS data powered by the R package limma.

epigen /spilterlize_integrate

A Snakemake workflow and MrBiomics module to split, filter, normalize, integrate and select highly variable features of count matrices resulting from next-generation sequencing (NGS) experiments (e.g., RNA-seq, ATAC-seq, ChIP-seq, Methyl-seq, miRNA-seq,...) including confounding factor analysis and diagnostic visualizations.

dputhier /pygtftk

A python package and a set of shell commands to handle GTF files

sajuukLyu /Protocols-4pub

Multi-omics analysis protocols by Lyu.

pinellolab /haystack_bio

Haystack: Epigenetic Variability and Transcription Factor Motifs Analysis Pipeline

pbenner /gonetics

Go / Golang Bioinformatics Library