hchetia Goto Github PK

archr

ArchR : Analysis of Regulatory Chromatin in R (www.ArchRProject.com)

atac-seq-pipeline

ENCODE ATAC-seq pipeline

ccfdna_acss_manuscript

The repo for the manuscript "Cardiovascular disease biomarkers derived from circulating cell-free DNA methylation"

cegx_bsexpress

A customised version of bsExpress. Repository moved from BitBucket 22/7/2019.

cegx_bsexpress_docker

A dockerised version of bsExpress with significant updates over the previous release. For analysing the methylation status of spike in control sequences for CEGX kits. Repository moved from BitBucket 22/7/2019.

cell-type-specific-epigenomics

chip-seq-pipeline2

ENCODE ChIP-seq pipeline

chromvar

chromatin Variability Across Regions (of the genome!)

compgenomrdata

Data for book

deephm_hc

docker-cheat-sheet

Docker Cheat Sheet

expansionhunter

A tool for estimating repeat sizes

genomicsem

R-package for structural equation modeling based on GWAS summary data

gpt4all

gpt4all: an ecosystem of open-source chatbots trained on a massive collections of clean assistant data including code, stories and dialogue

gptcelltype

gptstudio

GPT RStudio addins that enable GPT assisted coding, writing & analysis

hc_finaletoolkit

FinaleToolkit is a package and standalone program to extract fragmentation features of cell-free DNA from paired-end sequencing data.

hchetia.github.io

herper_page

hg002

A complete diploid human genome

hhgb

hic

Analysis of Chromosome Conformation Capture data (Hi-C)

methylation_hc

methylscore

Identification of differentially methylated regions between multiple epigenomes from BS-treated read mappings via methylated region calling

occean_2024

All code associated with "Gene body DNA hydroxymethylation restricts the magnitude of transcriptional changes during aging"

radar

An interactive tool for rapid analysis of diagnostic and antimicrobial pattern in R using Shiny

rowcorr_hc

scgpt_hc

splash_hc

tcr-bcr-seq-analysis

T/B cell receptor sequencing analysis notes