Alternatives and similar repositories for atac_dnase_pipelines

Users that are interested in atac_dnase_pipelines 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 / chipseq_pipeline
  AQUAS TF and histone ChIP-seq pipeline
  ☆111Updated 3 years ago
• bli25 / RSEM_tutorial
  A short tutorial on how to use RSEM
  ☆139Updated 5 years ago
• shenlab-sinai / ngsplot
  Quick mining and visualization of NGS data by integrating genomic databases
  ☆268Updated 2 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
  ☆174Updated 7 years ago
• ENCODE-DCC / long-rna-seq-pipeline
  STAR based ENCODE Long RNA-Seq processing pipeline
  ☆96Updated 4 years ago
• harvardinformatics / ATAC-seq
  ☆144Updated 6 years ago
• Hoohm / dropSeqPipe
  A SingleCell RNASeq pre-processing snakemake workflow
  ☆148Updated 2 years ago
• GreenleafLab / NucleoATAC
  nucleosome calling using ATAC-seq
  ☆109Updated 4 years ago
• nf-core / atacseq
  ATAC-seq peak-calling and QC analysis pipeline
  ☆218Updated 2 weeks ago
• ENCODE-DCC / rna-seq-pipeline
  ☆156Updated 3 years ago
• jsh58 / Genrich
  Detecting sites of genomic enrichment
  ☆197Updated 2 years ago
• sdparekh / zUMIs
  zUMIs: A fast and flexible pipeline to process RNA sequencing data with UMIs
  ☆286Updated last year
• Boyle-Lab / Blacklist
  Application for making ENCODE Blacklists
  ☆329Updated 4 years ago
• loosolab / TOBIAS
  Transcription factor Occupancy prediction By Investigation of ATAC-seq Signal
  ☆234Updated this week
• FRED-2 / OptiType
  Precision HLA typing from next-generation sequencing data
  ☆205Updated last year
• AlexandrovLab / SigProfilerExtractor
  SigProfilerExtractor allows de novo extraction of mutational signatures from data generated in a matrix format. The tool identifies the n…
  ☆166Updated 2 weeks ago
• RabadanLab / arcasHLA
  Fast and accurate in silico inference of HLA genotypes from RNA-seq
  ☆148Updated last year
• yupenghe / methylpy
  WGBS/NOMe-seq Data Processing & Differential Methylation Analysis
  ☆146Updated 2 years ago
• igordot / genomics
  A collection of scripts and notes related to genomics and bioinformatics
  ☆217Updated last month
• akdemirlab / HiCPlotter
  “When everything is connected to everything else, for better or worse, everything matters.” Bruce Mau
  ☆190Updated 5 years ago
• crazyhottommy / pyflow-ChIPseq
  a snakemake pipeline to process ChIP-seq files from GEO or in-house
  ☆110Updated 5 years ago
• FredHutch / SEACR
  SEACR: Sparse Enrichment Analysis for CUT&RUN
  ☆118Updated 2 years ago
• hms-dbmi / scde
  R package for analyzing single-cell RNA-seq data
  ☆177Updated last year
• STAR-Fusion / STAR-Fusion
  STAR-Fusion codebase
  ☆245Updated 2 months ago
• TrinityCTAT / Trinity_CTAT
  ☆120Updated 2 years ago
• nloyfer / wgbs_tools
  tools for working with Bisulfite Sequencing data while preserving reads intrinsic dependencies
  ☆175Updated this week
• snakemake-workflows / single-cell-rna-seq
  A single cell RNA-seq workflow, including highly variable gene analysis, cell type assignment and differential expression analysis.
  ☆104Updated 3 years ago
• VanLoo-lab / ascat
  ASCAT R package
  ☆192Updated 2 months ago