kundajelab / chipseq_pipeline

Related projects ⓘ

Alternatives and complementary repositories for chipseq_pipeline

• kundajelab / atac_dnase_pipelines
  ATAC-seq and DNase-seq processing pipeline
  ☆162Updated 2 years ago
• ENCODE-DCC / chip-seq-pipeline
  ENCODE Uniform processing pipeline for ChIP-seq
  ☆120Updated 4 years ago
• bli25 / RSEM_tutorial
  A short tutorial on how to use RSEM
  ☆133Updated 4 years ago
• TrinityCTAT / Trinity_CTAT
  ☆115Updated last year
• ENCODE-DCC / long-rna-seq-pipeline
  STAR based ENCODE Long RNA-Seq processing pipeline
  ☆92Updated 3 years ago
• GreenleafLab / NucleoATAC
  nucleosome calling using ATAC-seq
  ☆106Updated 3 years ago
• harvardinformatics / ATAC-seq
  ☆120Updated 5 years ago
• crazyhottommy / pyflow-ChIPseq
  a snakemake pipeline to process ChIP-seq files from GEO or in-house
  ☆103Updated 4 years ago
• AstraZeneca-NGS / VarDict
  VarDict
  ☆187Updated 10 months ago
• ENCODE-DCC / rna-seq-pipeline
  ☆141Updated 2 years ago
• FredHutch / SEACR
  SEACR: Sparse Enrichment Analysis for CUT&RUN
  ☆102Updated last year
• ndaniel / fusioncatcher
  Finder of Somatic Fusion Genes in RNA-seq data
  ☆141Updated last year
• davidaknowles / leafcutter
  Annotation-free quantification of RNA splicing. Yang I. Li, David A. Knowles, Jack Humphrey, Alvaro N. Barbeira, Scott P. Dickinson, Hae …
  ☆206Updated 5 months ago
• nf-core / atacseq
  ATAC-seq peak-calling and QC analysis pipeline
  ☆187Updated 3 weeks ago
• dpryan79 / MethylDackel
  A (mostly) universal methylation extractor for BS-seq experiments.
  ☆162Updated 4 months ago
• raerose01 / deconstructSigs
  deconstructSigs
  ☆138Updated last year
• Hoohm / dropSeqPipe
  A SingleCell RNASeq pre-processing snakemake workflow
  ☆147Updated last year
• FRED-2 / OptiType
  Precision HLA typing from next-generation sequencing data
  ☆188Updated 8 months ago
• bmvdgeijn / WASP
  WASP: allele-specific pipeline for unbiased read mapping and molecular QTL discovery
  ☆103Updated 3 years ago
• Xinglab / rmats2sashimiplot
  ☆135Updated 2 months ago
• jsh58 / Genrich
  Detecting sites of genomic enrichment
  ☆187Updated last year
• stevekm / IGV-snapshot-automator
  Script to automatically create and run IGV snapshot batchscripts
  ☆137Updated last year
• CRG-Barcelona / bwtool
  A tool for bigWig files.
  ☆118Updated 6 years ago
• lima1 / PureCN
  Copy number calling and variant classification using targeted short read sequencing
  ☆127Updated last month
• brentp / bwa-meth
  fast and accurate alignment of BS-Seq reads using bwa-mem and a 3-letter genome
  ☆143Updated 2 months ago
• snakemake-workflows / single-cell-rna-seq
  A single cell RNA-seq workflow, including highly variable gene analysis, cell type assignment and differential expression analysis.
  ☆97Updated last year
• YeoLab / single-cell-bioinformatics
  Course material in notebook format for learning about single cell bioinformatics methods
  ☆100Updated 8 years ago
• VanLoo-lab / ascat
  ASCAT R package
  ☆165Updated last week
• griffithlab / regtools
  Integrate DNA-seq and RNA-seq data to identify mutations that are associated with regulatory effects on gene expression.
  ☆120Updated 2 months ago
• hdng / clonevol
  Inferring and visualizing clonal evolution in multi-sample cancer sequencing
  ☆142Updated 4 years ago