Alternatives and similar repositories for MACS

Users that are interested in MACS are comparing it to the libraries listed below

• crazyhottommy / ChIP-seq-analysis
  ChIP-seq analysis notes from Ming Tang
  ☆818Updated last year
• deeptools / deepTools
  Tools to process and analyze deep sequencing data.
  ☆733Updated last month
• FelixKrueger / TrimGalore
  A wrapper around Cutadapt and FastQC to consistently apply adapter and quality trimming to FastQ files, with extra functionality for RRBS…
  ☆524Updated last week
• CGATOxford / UMI-tools
  Tools for handling Unique Molecular Identifiers in NGS data sets
  ☆520Updated 2 months ago
• ENCODE-DCC / atac-seq-pipeline
  ENCODE ATAC-seq pipeline
  ☆427Updated last year
• hbctraining / DGE_workshop
  ☆395Updated 3 years ago
• FelixKrueger / Bismark
  A tool to map bisulfite converted sequence reads and determine cytosine methylation states
  ☆433Updated last month
• deeptools / pyGenomeTracks
  python module to plot beautiful and highly customizable genome browser tracks
  ☆838Updated last year
• hbctraining / In-depth-NGS-Data-Analysis-Course
  ☆441Updated 5 years ago
• Teichlab / scg_lib_structs
  Collections of library structure and sequence of popular single cell genomic methods
  ☆477Updated 3 months ago
• pachterlab / kallisto
  Near-optimal RNA-Seq quantification
  ☆698Updated 5 months ago
• nf-core / sarek
  Analysis pipeline to detect germline or somatic variants (pre-processing, variant calling and annotation) from WGS / targeted sequencing
  ☆476Updated this week
• hbctraining / Intro-to-ChIPseq
  Intro to ChIPseq using HPC
  ☆311Updated 2 years ago
• deweylab / RSEM
  RSEM: accurate quantification of gene and isoform expression from RNA-Seq data
  ☆451Updated last year
• nf-core / rnaseq
  RNA sequencing analysis pipeline using STAR, RSEM, HISAT2 or Salmon with gene/isoform counts and extensive quality control.
  ☆1,101Updated this week
• thelovelab / DESeq2
  Differential expression of RNA-seq data using the Negative Binomial
  ☆410Updated 3 weeks ago
• 10XGenomics / cellranger
  10x Genomics Single Cell Analysis
  ☆428Updated 7 months ago
• twbattaglia / RNAseq-workflow
  A repository for setting up a RNAseq workflow
  ☆442Updated 8 years ago
• broadinstitute / gtex-pipeline
  GTEx & TOPMed data production and analysis pipelines
  ☆380Updated this week
• nservant / HiC-Pro
  HiC-Pro: An optimized and flexible pipeline for Hi-C data processing
  ☆419Updated last year
• COMBINE-lab / salmon
  🐟 🍣 🍱 Highly-accurate & wicked fast transcript-level quantification from RNA-seq reads using selective alignment
  ☆829Updated last year
• crazyhottommy / RNA-seq-analysis
  RNAseq analysis notes from Ming Tang
  ☆1,036Updated 3 years ago
• mdozmorov / HiC_tools
  A collection of tools for Hi-C data analysis
  ☆606Updated last month
• aidenlab / juicer
  A One-Click System for Analyzing Loop-Resolution Hi-C Experiments
  ☆456Updated 2 weeks ago
• DaehwanKimLab / hisat2
  Graph-based alignment (Hierarchical Graph FM index)
  ☆510Updated last week
• crazyhottommy / bioinformatics-one-liners
  Bioinformatics one liners from Ming Tang
  ☆493Updated 4 years ago
• maxplanck-ie / snakepipes
  Customizable workflows based on snakemake and python for the analysis of NGS data
  ☆397Updated 2 weeks ago
• arq5x / bedtools2
  bedtools - the swiss army knife for genome arithmetic
  ☆999Updated 6 months ago
• gpertea / stringtie
  Transcript assembly and quantification for RNA-Seq
  ☆459Updated 3 weeks ago
• trinityrnaseq / trinityrnaseq
  Trinity RNA-Seq de novo transcriptome assembly
  ☆869Updated 7 months ago