Alternatives and similar repositories for chip-seq-pipeline2:

Users that are interested in chip-seq-pipeline2 are comparing it to the libraries listed below

• Boyle-Lab / Blacklist
  Application for making ENCODE Blacklists
  ☆295Updated 3 years ago
• ENCODE-DCC / atac-seq-pipeline
  ENCODE ATAC-seq pipeline
  ☆407Updated 8 months ago
• hbctraining / Intro-to-ChIPseq
  Intro to ChIPseq using HPC
  ☆300Updated 2 years ago
• nf-core / atacseq
  ATAC-seq peak-calling and QC analysis pipeline
  ☆197Updated last week
• snakemake-workflows / rna-seq-star-deseq2
  RNA-seq workflow using STAR and DESeq2
  ☆339Updated 7 months ago
• shenlab-sinai / ngsplot
  Quick mining and visualization of NGS data by integrating genomic databases
  ☆264Updated last year
• loosolab / TOBIAS
  Transcription factor Occupancy prediction By Investigation of ATAC-seq Signal
  ☆209Updated last month
• nservant / HiC-Pro
  HiC-Pro: An optimized and flexible pipeline for Hi-C data processing
  ☆396Updated 11 months ago
• ENCODE-DCC / rna-seq-pipeline
  ☆147Updated 2 years ago
• sdparekh / zUMIs
  zUMIs: A fast and flexible pipeline to process RNA sequencing data with UMIs
  ☆278Updated 8 months ago
• Teichlab / scg_lib_structs
  Collections of library structure and sequence of popular single cell genomic methods
  ☆453Updated 3 months ago
• r3fang / SnapATAC
  Analysis Pipeline for Single Cell ATAC-seq
  ☆314Updated last year
• nf-core / chipseq
  ChIP-seq peak-calling, QC and differential analysis pipeline.
  ☆207Updated last week
• hbctraining / Intro-to-DGE
  ☆192Updated this week
• broadinstitute / gtex-pipeline
  GTEx & TOPMed data production and analysis pipelines
  ☆358Updated last month
• ENCODE-DCC / chip-seq-pipeline
  ENCODE Uniform processing pipeline for ChIP-seq
  ☆123Updated 4 years ago
• rvalieris / parallel-fastq-dump
  parallel fastq-dump wrapper
  ☆288Updated last year
• mdozmorov / HiC_data
  A (continuously updated) collection of references to Hi-C data. Predominantly human/mouse Hi-C data, with replicates.
  ☆183Updated 2 months ago
• mhammell-laboratory / TEtranscripts
  A package for including transposable elements in differential enrichment analysis of sequencing datasets.
  ☆244Updated last month
• maxplanck-ie / snakepipes
  Customizable workflows based on snakemake and python for the analysis of NGS data
  ☆394Updated this week
• deeptools / HiCExplorer
  HiCExplorer is a powerful and easy to use set of tools to process, normalize and visualize Hi-C data.
  ☆239Updated 3 months ago
• igordot / genomics
  A collection of scripts and notes related to genomics and bioinformatics
  ☆207Updated last month
• hbctraining / Investigating-chromatin-biology-ChIPseq
  ☆88Updated last month
• scRNA-tools / scRNA-tools
  Table of software for the analysis of single-cell RNA-seq data.
  ☆316Updated this week
• snakemake-workflows / dna-seq-gatk-variant-calling
  This Snakemake pipeline implements the GATK best-practices workflow
  ☆250Updated last year
• broadinstitute / ssGSEA2.0
  Single sample Gene Set Enrichment analysis (ssGSEA) and PTM Enrichment Analysis (PTM-SEA)
  ☆270Updated 5 months ago
• comprna / SUPPA
  SUPPA: Fast quantification of splicing and differential splicing
  ☆272Updated 9 months ago
• hbctraining / Intro-to-rnaseq-hpc-O2
  This repository has teaching materials for a 2 and 3-day Introduction to RNA-sequencing data analysis workshop using the O2 Cluster
  ☆166Updated 4 years ago
• suhrig / arriba
  Fast and accurate gene fusion detection from RNA-Seq data
  ☆235Updated last week
• harvardinformatics / ATAC-seq
  ☆129Updated 6 years ago