ATAC-seq and DNase-seq processing pipeline
☆165Jun 21, 2022Updated 3 years ago
Alternatives and similar repositories for atac_dnase_pipelines
Users that are interested in atac_dnase_pipelines are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- AQUAS TF and histone ChIP-seq pipeline☆112Jun 21, 2022Updated 3 years ago
- nucleosome calling using ATAC-seq☆111Dec 20, 2020Updated 5 years ago
- R package for reading in & working with NucleoATAC outputs☆26Oct 13, 2018Updated 7 years ago
- ENCODE ATAC-seq pipeline☆449Jul 18, 2024Updated last year
- Analysis pipeline for ATAC-seq Data☆62Sep 2, 2021Updated 4 years ago
- Bare Metal GPUs on DigitalOcean Gradient AI • AdPurpose-built for serious AI teams training foundational models, running large-scale inference, and pushing the boundaries of what's possible.
- ENCODE Uniform processing pipeline for ChIP-seq☆125Mar 23, 2020Updated 6 years ago
- Fast motif matching in R☆47Jan 24, 2024Updated 2 years ago
- A Feature Density Estimator for High-Throughput Sequence Tags☆22May 25, 2021Updated 4 years ago
- IDR☆176Sep 18, 2018Updated 7 years ago
- A hierarchical multiscale model for inferring transcription factor binding from chromatin accessibility data.☆25Aug 17, 2016Updated 9 years ago
- ATAC-seq snakemake pipeline☆90Feb 13, 2020Updated 6 years ago
- Python module for the easy handling and analysis of DNase-seq data☆37Jul 18, 2019Updated 6 years ago
- ChIP-seq analysis notes from Ming Tang☆851Aug 5, 2024Updated last year
- TFFM framework☆13Sep 22, 2025Updated 7 months ago
- Deploy on Railway without the complexity - Free Credits Offer • AdConnect your repo and Railway handles the rest with instant previews. Quickly provision container image services, databases, and storage volumes.
- The code for Daugherty, et al 2017 - Chromatin accessibility dynamics reveal novel functional enhancers in C. elegans☆11Aug 24, 2017Updated 8 years ago
- MACS -- Model-based Analysis of ChIP-Seq☆774Updated this week
- HMMRATAC peak caller for ATAC-seq data☆100Nov 12, 2024Updated last year
- chromatin Variability Across Regions (of the genome!)☆189May 1, 2026Updated last week
- ENCODE ChIP-seq pipeline☆278Feb 15, 2024Updated 2 years ago
- A collection of tools for Hi-C data analysis☆641Mar 22, 2026Updated last month
- Bioconductor package esATAC: an Easy-to-use Systematic pipeline for ATAC-seq data analysis☆23Aug 8, 2022Updated 3 years ago
- A toolkit for working with ATAC-seq data.☆24Jan 22, 2026Updated 3 months ago
- Detecting sites of genomic enrichment☆201May 8, 2023Updated 3 years ago
- Managed Kubernetes at scale on DigitalOcean • AdDigitalOcean Kubernetes includes the control plane, bandwidth allowance, container registry, automatic updates, and more for free.
- Quick mining and visualization of NGS data by integrating genomic databases☆272May 5, 2023Updated 3 years ago
- SeqPlots - An interactive tool for visualizing NGS signals and sequence motif densities along genomic features using average plots and he…☆87May 11, 2022Updated 3 years ago
- Preprocessing pipeline for (sc)ATAC data☆10Feb 22, 2022Updated 4 years ago
- Published methods☆15Oct 19, 2016Updated 9 years ago
- Collection of R functions used in the Hochwagen Lab☆12Aug 4, 2025Updated 9 months ago
- ☆145Jan 7, 2019Updated 7 years ago
- A set of pipelines for Hi-C and ChIP-Seq analysis.☆48Apr 11, 2024Updated 2 years ago
- make enriched heatmap which visualizes the enrichment of genomic signals to specific target regions.☆201Jan 30, 2026Updated 3 months ago
- A toolkit to learn how to model and interpret regulatory sequence data using deep learning.☆264Aug 1, 2023Updated 2 years ago
- AI Agents on DigitalOcean Gradient AI Platform • AdBuild production-ready AI agents using customizable tools or access multiple LLMs through a single endpoint. Create custom knowledge bases or connect external data.
- Analysis Workflow for Assay for Transposase-Accessible Chromatin using sequencing (ATAC-Seq)☆76Aug 3, 2023Updated 2 years ago
- HiC-Pro: An optimized and flexible pipeline for Hi-C data processing☆435Mar 28, 2024Updated 2 years ago
- West Coast Dream Team Whole Genome Bisulfite Sequencing☆17Nov 7, 2025Updated 6 months ago
- ☆11Aug 3, 2018Updated 7 years ago
- A small R package to make sequencing read coverage plots in R.☆42Apr 3, 2026Updated last month
- Analysis Pipeline for Single Cell ATAC-seq☆322Apr 27, 2023Updated 3 years ago
- A modular, containerized pipeline for ATAC-seq data processing☆60Apr 23, 2026Updated 2 weeks ago