deeptools / deepTools
Tools to process and analyze deep sequencing data.
☆703Updated this week
Alternatives and similar repositories for deepTools:
Users that are interested in deepTools are comparing it to the libraries listed below
- ☆442Updated 4 years ago
- python module to plot beautiful and highly customizable genome browser tracks☆797Updated 8 months ago
- RSEM: accurate quantification of gene and isoform expression from RNA-Seq data☆430Updated last year
- Tools for handling Unique Molecular Identifiers in NGS data sets☆504Updated 2 weeks ago
- HiC-Pro: An optimized and flexible pipeline for Hi-C data processing☆395Updated 11 months ago
- A tool to map bisulfite converted sequence reads and determine cytosine methylation states☆409Updated 2 months ago
- A wrapper around Cutadapt and FastQC to consistently apply adapter and quality trimming to FastQ files, with extra functionality for RRBS…☆488Updated this week
- Customizable workflows based on snakemake and python for the analysis of NGS data☆393Updated last week
- Intro to ChIPseq using HPC☆299Updated 2 years ago
- RNA-seq workflow using STAR and DESeq2☆337Updated 7 months ago
- Convert a VCF into a MAF, where each variant is annotated to only one of all possible gene isoforms☆381Updated 3 months ago
- Bioinformatics one liners from Ming Tang☆464Updated 4 years ago
- ENCODE ATAC-seq pipeline☆404Updated 7 months ago
- ENCODE ChIP-seq pipeline☆258Updated last year
- ChIP-seq peak-calling, QC and differential analysis pipeline.☆206Updated this week
- Application for making ENCODE Blacklists☆294Updated 3 years ago
- MACS -- Model-based Analysis of ChIP-Seq☆725Updated 2 weeks ago
- Java utilities for Bioinformatics☆495Updated this week
- Analysis pipeline to detect germline or somatic variants (pre-processing, variant calling and annotation) from WGS / targeted sequencing☆426Updated this week
- Quick mining and visualization of NGS data by integrating genomic databases☆264Updated last year
- Plot structural variant signals from many BAMs and CRAMs☆540Updated 8 months ago
- parallel fastq-dump wrapper☆288Updated last year
- This repository contains chromosome/contig name mappings between UCSC <-> Ensembl <-> Gencode for a variety of genomes.☆240Updated 2 years ago
- Differential analysis of RNA-Seq☆304Updated 8 months ago
- Near-optimal RNA-Seq quantification☆673Updated 3 months ago
- Transcript assembly and quantification for RNA-Seq☆417Updated 3 weeks ago
- ☆386Updated 3 years ago
- Collections of library structure and sequence of popular single cell genomic methods☆452Updated 3 months ago
- A collection of tools for Hi-C data analysis☆570Updated last month
- Performant Pythonic GenomicRanges☆454Updated this week