ATAC-seq peak-calling and QC analysis pipeline
☆220Mar 19, 2026Updated this week
Alternatives and similar repositories for atacseq
Users that are interested in atacseq are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- ChIP-seq peak-calling, QC and differential analysis pipeline.☆234Updated this week
- Analysis pipeline for CUT&RUN and CUT&TAG experiments that includes QC, support for spike-ins, IgG controls, peak calling and downstream …☆109Mar 16, 2026Updated last week
- Analysis of Chromosome Conformation Capture data (Hi-C)☆110Mar 6, 2026Updated 2 weeks ago
- RNA sequencing analysis pipeline using STAR, RSEM, HISAT2 or Salmon with gene/isoform counts and extensive quality control.☆1,229Updated this week
- Single-cell RNA-Seq pipeline for barcode-based protocols such as 10x, DropSeq or SmartSeq, offering a variety of aligners and empty-dropl…☆318Updated this week
- ENCODE ATAC-seq pipeline☆448Jul 18, 2024Updated last year
- Nascent Transcription Processing Pipeline☆22Nov 20, 2025Updated 4 months ago
- Methylation (Bisulfite-Sequencing) analysis pipeline using Bismark/bwa-meth + MethylDackel or bwa-mem + rastair☆188Updated this week
- A toolkit for QC and visualization of ATAC-seq results.☆74Jan 8, 2025Updated last year
- MNase-seq analysis pipeline using BWA and DANPOS2.☆13Feb 23, 2026Updated last month
- ☆145Jan 7, 2019Updated 7 years ago
- RNA-seq analysis pipeline for detection of gene-fusions☆172Updated this week
- Pipeline to fetch metadata and raw FastQ files from public databases☆189Feb 8, 2026Updated last month
- Converts bam or cram files to fastq format and does quality control.☆32Jan 22, 2026Updated 2 months ago
- A small-RNA sequencing analysis pipeline☆98Jan 7, 2026Updated 2 months ago
- Analysis pipeline to detect germline or somatic variants (pre-processing, variant calling and annotation) from WGS / targeted sequencing☆555Updated this week
- MACS -- Model-based Analysis of ChIP-Seq☆767Updated this week
- An analysis pipeline for Nanostring nCounter expression data.☆18Jan 30, 2026Updated last month
- ☆17Jan 3, 2019Updated 7 years ago
- Transcription factor Occupancy prediction By Investigation of ATAC-seq Signal☆241Updated this week
- Python package with helper tools for the nf-core community.☆295Updated this week
- ATAC-seq processing pipeline☆34Apr 8, 2022Updated 3 years ago
- Precision HLA typing from next-generation sequencing data☆79Mar 4, 2026Updated 2 weeks ago
- Scasat is a single cell ATAC-seq preprocessing and analysis pipeline☆35Feb 27, 2019Updated 7 years ago
- nucleosome calling using ATAC-seq☆110Dec 20, 2020Updated 5 years ago
- Aggregate results from bioinformatics analyses across many samples into a single report.☆1,430Mar 12, 2026Updated last week
- R toolkit for the analysis of single-cell chromatin data☆410Jan 20, 2026Updated 2 months ago
- Nanopore demultiplexing, QC and alignment pipeline☆221Nov 20, 2025Updated 4 months ago
- Analysis Workflow for Assay for Transposase-Accessible Chromatin using sequencing (ATAC-Seq)☆75Aug 3, 2023Updated 2 years ago
- rnasplice is a bioinformatics pipeline for RNA-seq alternative splicing analysis☆63Jun 3, 2025Updated 9 months ago
- chromatin Variability Across Regions (of the genome!)☆185Jul 10, 2024Updated last year
- epigenome analysis to rank transcription factors☆15Dec 19, 2019Updated 6 years ago
- Bioconductor package esATAC: an Easy-to-use Systematic pipeline for ATAC-seq data analysis☆23Aug 8, 2022Updated 3 years ago
- Analysis Pipeline for Single Cell ATAC-seq☆322Apr 27, 2023Updated 2 years ago
- Simple bacterial assembly and annotation pipeline☆85Mar 16, 2026Updated last week
- Detecting sites of genomic enrichment☆199May 8, 2023Updated 2 years ago
- Bead-based single-cell atac processing☆33Nov 13, 2021Updated 4 years ago
- Relative Abundance of Transcripts: An R package for the detection of Differential Transcript isoform Usage.☆33Jun 3, 2022Updated 3 years ago
- Differential abundance analysis for feature/ observation matrices from platforms such as RNA-seq☆91Updated this week