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activedriverwgsr

ActiveDriverWGSR is an R package for discovery of cancer driver genes and non-coding elements in whole genome sequencing data

atac_seq_practice

chip-seq-pipeline2

ENCODE ChIP-seq pipeline

dcc

DCC uses output from the STAR read mapper to systematically detect back-splice junctions in next-generation sequencing data. DCC applies a series of filters and integrates data across replicate sets to arrive at a precise list of circRNA candidates.

dmrichr

An executable and package for the statistical analysis and visualization of differentially methylated regions (DMRs) from CpG count matrices (Bismark cytosine reports)

dna-methylation-analysis

DNA methylation analysis notes from Ming Tang

driverpower

DriverPower

dumr

differentially Under Methylated Regions among normal tissues and pan-cancers

enhancer-gene-vis

A tool for visualizing ABC enhancer-gene connections in the context of genetic variants.

escc-mei-epigenetics

gencode_regions

Extract 3'UTR, 5'UTR, CDS, Promoter, Genes, Introns, Exons from GTF files

mechine-learning-in-action

methylkit

R package for DNA methylation analysis

methylseq

Methylation (Bisulfite-Sequencing) analysis pipeline using Bismark or bwa-meth + MethylDackel

non-coding-somatic-mutations-in-ovca

noncoding-tumor-mutation-paper

predictdbpipeline

predixcan

PrediXcan Project

predixcan-post-analysis

python-scripts-collections

recurrentmutationstats

This contains code for statistical analysis of recurrent mutations in whole genome sequencing data.

scrna.seq.course

scrna.seq.course-1

Analysis of single cell RNA-seq data course

single-cell-sequencing

sx_wgs_predictdb

A record for creating SX gene expression inputation models

wechat-article

yyh_notebook