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19 search results found

MACS -- Model-based Analysis of ChIP-Seq

Deeptools ⭐ 644

Tools to process and analyze deep sequencing data.

Chip Seq Analysis ⭐ 586

ChIP-seq analysis notes from Ming Tang

Snakepipes ⭐ 359

Customizable workflows based on snakemake and python for the analysis of NGS data

Seq2science ⭐ 132

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.

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

Publication quality NGS track plotting

Pyflow Chipseq ⭐ 55

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

Pipeliner ⭐ 44

An open-source and scalable solution to NGS analysis powered by the NIH's Biowulf cluster.

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

Transcription Factor Binding Prediction from ATAC-seq and scATAC-seq with Deep Neural Networks

Project Manager for NGS data analysis

Open_pipelines ⭐ 17

Pipelines for NGS data preprocessing by the Bock lab and friends

A robust model for quantitative comparison of ChIP-Seq data sets.

Pybedgraph ⭐ 13

A Python package for fast operations on 1-dimensional genomic signal tracks

A toolkit for NGS analysis with Python

Enrichment_analysis ⭐ 10

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

Sargasso disambiguates mixed-species high-throughput sequencing data.

🌊 Analyse experimental conditions and replicates jointly to remove cell-type specific bias in multi-condition ChIP-Seq

Genespark ⭐ 5

geneSpark is a bioinformatics software program written in Python and Apache Spark for big data epigenetic histone modification ChIP-seq analysis.

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