Alternatives and similar repositories for chipseq_pipeline

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

• ENCODE-DCC / chip-seq-pipeline
  ENCODE Uniform processing pipeline for ChIP-seq
  ☆123Updated 5 years ago
• kundajelab / atac_dnase_pipelines
  ATAC-seq and DNase-seq processing pipeline
  ☆166Updated 3 years ago
• ENCODE-DCC / long-rna-seq-pipeline
  STAR based ENCODE Long RNA-Seq processing pipeline
  ☆96Updated 4 years ago
• bli25 / RSEM_tutorial
  A short tutorial on how to use RSEM
  ☆139Updated 5 years ago
• GreenleafLab / NucleoATAC
  nucleosome calling using ATAC-seq
  ☆108Updated 4 years ago
• davidaknowles / leafcutter
  Annotation-free quantification of RNA splicing. Yang I. Li, David A. Knowles, Jack Humphrey, Alvaro N. Barbeira, Scott P. Dickinson, Hae …
  ☆226Updated last year
• nboley / idr
  IDR
  ☆173Updated 7 years ago
• broadinstitute / ichorCNA
  Estimating tumor fraction in cell-free DNA from ultra-low-pass whole genome sequencing.
  ☆191Updated last year
• FredHutch / SEACR
  SEACR: Sparse Enrichment Analysis for CUT&RUN
  ☆117Updated 2 years ago
• griffithlab / regtools
  Integrate DNA-seq and RNA-seq data to identify mutations that are associated with regulatory effects on gene expression.
  ☆133Updated last year
• TrinityCTAT / Trinity_CTAT
  ☆120Updated 2 years ago
• ENCODE-DCC / rna-seq-pipeline
  ☆157Updated 3 years ago
• yupenghe / methylpy
  WGBS/NOMe-seq Data Processing & Differential Methylation Analysis
  ☆146Updated 2 years ago
• tobiasrausch / ATACseq
  Analysis Workflow for Assay for Transposase-Accessible Chromatin using sequencing (ATAC-Seq)
  ☆75Updated 2 years ago
• crazyhottommy / pyflow-ChIPseq
  a snakemake pipeline to process ChIP-seq files from GEO or in-house
  ☆110Updated 5 years ago
• harvardinformatics / ATAC-seq
  ☆143Updated 6 years ago
• jernst98 / ChromHMM
  ☆90Updated 4 months ago
• ZhengXia / dapars
  DaPars(Dynamic analysis of Alternative PolyAdenylation from RNA-seq)
  ☆51Updated 3 years ago
• virajbdeshpande / AmpliconArchitect
  AmpliconArchitect (AA) is a tool to identify one or more connected genomic regions which have simultaneous copy number amplification and …
  ☆155Updated last year
• akdemirlab / HiCPlotter
  “When everything is connected to everything else, for better or worse, everything matters.” Bruce Mau
  ☆189Updated 5 years ago
• ndaniel / fusioncatcher
  Finder of Somatic Fusion Genes in RNA-seq data
  ☆146Updated 2 months ago
• raerose01 / deconstructSigs
  deconstructSigs
  ☆143Updated 2 years ago
• genome / sciclone
  An R package for inferring the subclonal architecture of tumors
  ☆122Updated 2 years ago
• Hoohm / dropSeqPipe
  A SingleCell RNASeq pre-processing snakemake workflow
  ☆148Updated 2 years ago
• jsh58 / Genrich
  Detecting sites of genomic enrichment
  ☆196Updated 2 years ago
• ding-lab / msisensor
  microsatellite instability detection using tumor only or paired tumor-normal data
  ☆132Updated 4 years ago
• haowenz / chromap
  Fast alignment and preprocessing of chromatin profiles
  ☆206Updated last month
• RabadanLab / arcasHLA
  Fast and accurate in silico inference of HLA genotypes from RNA-seq
  ☆147Updated last year
• AstraZeneca-NGS / reference_data
  Reference data: BED files, genes, transcripts, variations.
  ☆88Updated 7 years ago
• LiuLabUB / HMMRATAC
  HMMRATAC peak caller for ATAC-seq data
  ☆99Updated last year