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The Top 23 Atac Seq Open Source Projects

Open source projects categorized as Atac Seq
Categories > Atac Seq
Awesome Single Cell ⭐ 2,784
Community-curated list of software packages and data resources for single-cell, including RNA-seq, ATAC-seq, etc.
most recent commit 3 months ago
Macs ⭐ 681
MACS -- Model-based Analysis of ChIP-Seq
dependent packages 3total releases 39most recent commit a month agopypi MACS2} Downloads
Snakepipes ⭐ 359
Customizable workflows based on snakemake and python for the analysis of NGS data
most recent commit 3 months ago
Chipseeker ⭐ 204
🎯 ChIP peak Annotation, Comparison and Visualization
most recent commit 3 months ago
Tobias ⭐ 162
Transcription factor Occupancy prediction By Investigation of ATAC-seq Signal
dependent packages 1total releases 42most recent commit 4 months agopypi tobias} Downloads
Atacseq ⭐ 145
ATAC-seq peak-calling and QC analysis pipeline
most recent commit 8 months ago
Atac_dnase_pipelines ⭐ 135
ATAC-seq and DNase-seq processing pipeline
most recent commit 5 years ago
Seq2science ⭐ 132
Automated and customizable preprocessing of Next-Generation Sequencing data, including full (sc)ATAC-seq, ChIP-seq, and (sc)RNA-seq workflows. Works equally easy with public as local data.
most recent commit 5 months ago
Reg Gen ⭐ 96
Regulatory Genomics Toolbox: Python library and set of tools for the integrative analysis of high throughput regulatory genomics data.
most recent commit 6 months ago
Scatac Benchmarking ⭐ 92
Benchmarking computational single cell ATAC-seq methods
most recent commit 3 years ago
Dolphinnext ⭐ 92
A graphical user interface for distributed data processing of high throughput genomics
most recent commit a year ago
Nucleoatac ⭐ 78
nucleosome calling using ATAC-seq
most recent commit 5 years ago
Chromvar ⭐ 69
chromatin Variability Across Regions (of the genome!)
most recent commit 5 years ago
Scatac Pro ⭐ 64
A comprehensive tool for processing, analyzing and visulizing single cell chromatin accessibility sequencing data
most recent commit 10 months ago
Atacseq ⭐ 64
Analysis Workflow for Assay for Transposase-Accessible Chromatin using sequencing (ATAC-Seq)
most recent commit 9 months ago
Ataqv ⭐ 62
A toolkit for QC and visualization of ATAC-seq results.
most recent commit a year ago
Hmmratac ⭐ 49
HMMRATAC peak caller for ATAC-seq data
most recent commit 4 years ago
Protocols 4pub ⭐ 40
Multi-omics analysis protocols by Lyu.
most recent commit 8 months ago
Pyflow Atacseq ⭐ 37
ATAC-seq snakemake pipeline
most recent commit 4 years ago
Peca ⭐ 35
PECA is a software for inferring context specific gene regulatory network from paired gene expression and chromatin accessibility data
most recent commit 7 months ago
Differentialabundance ⭐ 34
Differential abundance analysis for feature/ observation matrices from platforms such as RNA-seq
most recent commit 3 months ago
Wiggleplotr ⭐ 28
A small R package to make sequencing read coverage plots in R.
most recent commit 2 years ago
Deepstats ⭐ 27
deepStats: a stastitical toolbox for deeptools and genomic signals
most recent commit 3 years ago
The 2 Most Depended On Atac Seq Open Source Projects
Macs ⭐ 681
MACS -- Model-based Analysis of ChIP-Seq
dependent packages 3total releases 39latest release July 21, 2023most recent commit a month agopypi MACS2} Downloads
Tobias ⭐ 162
Transcription factor Occupancy prediction By Investigation of ATAC-seq Signal
dependent packages 1total releases 42latest release August 17, 2023most recent commit 4 months agopypi tobias} Downloads
The 7 Latest Releases In Atac Seq Open Source Projects
Tobias ⭐ 162
Transcription factor Occupancy prediction By Investigation of ATAC-seq Signal
dependent packages 1total releases 42latest release August 17, 2023most recent commit 4 months agopypi tobias} Downloads
Macs ⭐ 681
MACS -- Model-based Analysis of ChIP-Seq
dependent packages 3total releases 39latest release July 21, 2023most recent commit a month agopypi MACS2} Downloads
Cinar ⭐ 10
A differential and enrichment analyses pipeline for bulk ATAC-seq (and RNA-seq)
total releases 4latest release May 18, 2022most recent commit 2 years ago
Maxatac ⭐ 24
Transcription Factor Binding Prediction from ATAC-seq and scATAC-seq with Deep Neural Networks
total releases 8latest release May 05, 2022most recent commit 5 months ago
Pybedgraph ⭐ 13
A Python package for fast operations on 1-dimensional genomic signal tracks
total releases 25latest release April 03, 2020most recent commit 4 years ago
Toolkit ⭐ 13
A toolkit for NGS analysis with Python
total releases 32latest release September 23, 2019most recent commit a year ago
Workflows ⭐ 12
CWL based Bioinformatics Workflows
total releases 11latest release December 13, 2018most recent commit 3 months ago
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