ATACseq
ATAC-Seq pipeline
An ATAC-Seq analysis pipeline written in shell script, providing tools for quality control, peak detection, and differential analysis of chromatin accessibility data.
Analysis Workflow for Assay for Transposase-Accessible Chromatin using sequencing (ATAC-Seq)
74 stars
7 watching
36 forks
Language: Shell
last commit: over 1 year ago
Linked from 1 awesome list
atac-seqatac-seq-pipelinechromatinnext-generation-sequencingnucleosome-positioningpeak-detectionsequencing
Related projects:
Repository | Description | Stars |
---|---|---|
zji90/scate | Provides a statistical framework for analyzing genome-wide regulatory landscape in single cells using scATAC-seq data | 9 |
nvidia-genomics-research/atacworks | A toolkit for preprocessing and analyzing high-throughput DNA sequencing data from ATAC-seq experiments using deep learning techniques. | 128 |
ncbi-hackathons/atacflow | A Nextflow-based pipeline for performing ATAC-seq analysis | 14 |
jsxlei/scale | A tool for analyzing single-cell ATAC-seq data using neural networks to extract latent features. | 100 |
nf-core/chipseq | A bioinformatics analysis pipeline for processing ChIP-seq data | 194 |
biocorecrg/vectorqc | Analyzes DNA sequencing data from circular vectors to generate annotated maps and GenBank files. | 5 |
nf-core/rnaseq | An RNA sequencing analysis pipeline that performs quality control, trimming, alignment, and quantification of gene expression from raw sequencing data. | 916 |
elementolab/sctcrseq | Recovering TCR sequences from single-cell RNA-seq data using a Python pipeline | 26 |
kharchenkolab/dropest | A software pipeline for analyzing single-cell RNA-seq data from droplet-based experiments | 88 |
abreschi/shortrna-nf | A pipeline tool for processing short RNA-seq data from start to finish. | 3 |
nf-core/methylseq | A bioinformatics pipeline for analyzing methylation sequencing data | 140 |
marianogabitto/chroma | A tool for annotating chromatin accessibility based on ATACseq profile data | 8 |
dtm2451/dittoseq | A suite of functions for analyzing and visualizing RNA sequencing data | 190 |
bcbio/bcbio-nextgen | A high-level configuration file drives parallel variant calling and analysis on sequencing data. | 994 |
griffithlab/rnaseq_tutorial | An educational tutorial and working demonstration pipeline for RNA-seq analysis on the cloud | 1,337 |