GitHub topics: dnase-seq
macs3-project/MACS
MACS -- Model-based Analysis of ChIP-Seq
Language: Python - Size: 554 MB - Last synced at: 1 day ago - Pushed at: 10 days ago - Stars: 730 - Forks: 271
CostaLab/reg-gen
Regulatory Genomics Toolbox: Python library and set of tools for the integrative analysis of high throughput regulatory genomics data.
Language: Python - Size: 80 MB - Last synced at: 5 days ago - Pushed at: 5 months ago - Stars: 108 - Forks: 30
slowkow/CENTIPEDE.tutorial
:bug: How to use CENTIPEDE to determine if a transcription factor is bound.
Language: R - Size: 3.76 MB - Last synced at: 7 days ago - Pushed at: about 7 years ago - Stars: 26 - Forks: 13
GreenleafLab/chromVAR
chromatin Variability Across Regions (of the genome!)
Language: R - Size: 18.8 MB - Last synced at: 6 months ago - Pushed at: 9 months ago - Stars: 158 - Forks: 38
Boyle-Lab/F-Seq2
Improving the feature density based peak caller with dynamic statistics
Language: Python - Size: 16.8 MB - Last synced at: 6 months ago - Pushed at: 6 months ago - Stars: 6 - Forks: 0
kundajelab/atac_dnase_pipelines
ATAC-seq and DNase-seq processing pipeline
Language: Python - Size: 13.8 MB - Last synced at: 6 months ago - Pushed at: almost 3 years ago - Stars: 162 - Forks: 81
Danko-Lab/dREG.HD
Refining TRE regions from dREG by imputing DHS.
Language: R - Size: 18.7 MB - Last synced at: 6 months ago - Pushed at: almost 7 years ago - Stars: 2 - Forks: 2
WeiqiangZhou/BIRD-model
This repository contains the prebuilt models for BIRD.
Size: 11.7 KB - Last synced at: 8 months ago - Pushed at: 8 months ago - Stars: 2 - Forks: 1
WeiqiangZhou/BIRD
Big data Regression for predicting DNase I hypersensitivity
Language: C++ - Size: 10.9 MB - Last synced at: 8 months ago - Pushed at: 8 months ago - Stars: 29 - Forks: 5
YosefLab/epitome
Pipeline for predicting ChIP-seq peaks in novel cell types using chromatin accessibility
Language: Python - Size: 157 MB - Last synced at: 7 months ago - Pushed at: over 2 years ago - Stars: 10 - Forks: 5
SUwonglab/PECA
PECA is a software for inferring context specific gene regulatory network from paired gene expression and chromatin accessibility data
Language: MATLAB - Size: 19.3 MB - Last synced at: about 1 year ago - Pushed at: over 1 year ago - Stars: 38 - Forks: 6
gtrichard/deepStats
deepStats: a stastitical toolbox for deeptools and genomic signals
Language: R - Size: 8.53 MB - Last synced at: over 1 year ago - Pushed at: almost 4 years ago - Stars: 30 - Forks: 3
Duke-GCB/GGR-cwl
CWL tools and workflows for GGR
Language: Common Workflow Language - Size: 723 KB - Last synced at: about 1 year ago - Pushed at: over 3 years ago - Stars: 20 - Forks: 17
pmb59/bivariate-genomic-footprinting
Scripts to run footprinting and motif-flanking accessibility analysis in DNase-seq/ ATAC-seq data
Language: R - Size: 44.9 KB - Last synced at: about 2 years ago - Pushed at: almost 3 years ago - Stars: 0 - Forks: 0
UcarLab/BiFET
A robust statistical test for TF footprint data analyses
Language: R - Size: 1.97 MB - Last synced at: about 1 year ago - Pushed at: about 5 years ago - Stars: 2 - Forks: 2
WeiqiangZhou/BIRD-data
A dataset for big data prediction.
Size: 24.4 KB - Last synced at: about 2 years ago - Pushed at: almost 6 years ago - Stars: 1 - Forks: 0
rintukutum/TRF2-DNase-ChIP
Codes for data processing and figure generation
Language: Python - Size: 127 MB - Last synced at: about 2 years ago - Pushed at: almost 7 years ago - Stars: 0 - Forks: 0
