Find transcription factor footprints and test for differential chromatin openness in TF motifs using ATAC-Seq. This method is based on the original HINT-ATAC ...

ATAC-seq processing pipeline. Contribute to ay-lab/ATACProc development by creating an account on GitHub.

13 февр. 2018 г. · The file differential_factor.txt contains normalization factors that rgt-hint used to normalize the ATAC-seq between conditions to account for different ...

Regulatory Genomics Toolbox: Python library and set of tools for the integrative analysis of high throughput regulatory genomics data.

... HINT-ATAC, a footprinting method that addresses ATAC- seq specific protocol artifacts; HMMRATAC splits a single ATAC-seq dataset into nucleosome-free and ...

24 июл. 2020 г. · We have a transcription factor WT and knock-out ATAC-seq, I performed rgt-hint tracks --raw and --bc . I want to see the difference between raw ...

A step-by-step pipeline for the analysis of ATAC-seq data (the assay for transposase-accessible chromatin with sequencing), written by the Cebola Lab.

We describe here how to detect footprints using HINT for ATAC-seq, DNase-seq, and histone modifications data. To perform footprinting, you need at least two ...

... HINT-ATAC, a footprinting method that addresses ATAC- seq specific protocol artifacts; HMMRATACsplits a single ATAC-seq dataset into nucleosome-free and ... Part1.2_convert_bam2_bigwig... · Part1_peak_calling.md

22 нояб. 2023 г. · I was successful in running the first three commands of HINT ATAC as shown below following this tutorial https://github ... HINT-ATAC-module ...