Grow your team on GitHub
GitHub is home to over 28 million developers working together. Join them to grow your own development teams, manage permissions, and collaborate on projects.Sign up
This repository hosts an automated NGS data analysis (RNA-seq and ChIP-seq) pipeline created using Snakemake.
A shiny app that obtains the coordinates and description of an input gene list (Ensembl v90) using biomaRt package.
A slightly modified version of RRHO (http://www.bioconductor.org/packages/release/bioc/html/RRHO.html) which outputs common scale and enables 4 lists for RRHO compare.
Quick mining and visualization of NGS data by integrating genomic databases
A Scalable Pipeline for RNA-seq Analysis
A preprocessing pipeline for ChIP-seq, including alignment, quality control, and visualization.
Differential analysis for ChIP-seq with biological replicates
Quantify repeat element enrichment with next-generation sequencing data
R package for testing and visualizing gene list overlaps
R package for testing and visualizing gene overlaps
A python script used to annotate genomic intervals.
Genome databases generation pipeline for ngs.plot and region_analysis.
A pipeline of miRNA by using miRanalyzer
Pipelines for ChIP-seq analysis, such as peak calling, differential enrichment detection, and pausing index calculation for PolII.
Shenlab's unofficial (but most updated) website
The best software engineering practices to develop bioinformatic programs
A collection of R code to perform bioinformatics.