Predicting Tissue Specific Enhancer Activity from Epigenetic Marks and Sequence
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Updated
Dec 3, 2014 - Python
Predicting Tissue Specific Enhancer Activity from Epigenetic Marks and Sequence
The documented analysis of the results reported in Akol et al., 2023 as R markdowns, Galaxy histories and jupyter logs..
Shiny app for LAM enrichment analysis of Infinium methylation data
Supplemental codes for the Chapter 14 Chromatin Sequencing and Data Analysis of the NYMU-GRC eBook 基因體技術與資料分析手冊
This repo contains python scripts used in Mack et al. 2022 (doi.org/10.1016/j.jmb.2022.167482). This includes MD simulations code and analysis scripts. The usage of these Python scripts is further explained in the enclosed README.pdf
Computational methods for our manuscript in 5fC and nucleosomal organization
Github Page for the Baccarelli Lab
Code for "Comprehensive computational analysis of epigenetic descriptors affecting CRISPR-Cas9 off-target activity"
A collection of simple scripts to facilitate the setup of everyday epigenetics experiments and to handle genomic methylation data
Code for SCLC cfMeDIP-seq PRIME as described in the following paper: doi: 10.1016/j.isci.2022.105487
Code for the crb2a multi omics manuscript
A machine learning tool that uses DNA sequence and epigenetic data to enhance recombination hotspot predictions.
ChIP-seq pipeline specific for the Zwart lab
Snakemake workflow for processing small RNA-seq libaries
Machine learning models of conserved regulatory elements and human genetics of neuropsychiatric traits
CutNtag pipeline for Pasini's lab written in snakemake
Anlysis of small RNAs in Arabidopsis SWR1 mutant (published in Choi et al. 2016, Plant Physiology, http://www.plantphysiol.org/content/171/2/1128)
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