ggplot2: elegant graphics for data analysis

A wrapper around Cutadapt and FastQC to consistently apply adapter and quality trimming to FastQ files, with extra functionality for RRBS data

ALLHiC: phasing and scaffolding polyploid genomes based on Hi-C data

Biopieces is a bioinformatic framework of tools easily used and easily created.

A tiny tool for checking the working domain of sci-hub

ViewBS - a powerful toolkit for visualization of high-throughput bisulfite sequencing data

DCC/DAC methylation pipeline source

Tool set for processing fasta/fastq/table formated data. Usually they are perl scripts.

This script will extract the intron feature gff3 and sequence from gene_exon gff3 and fasta file.

Define regions in the genome

Tools for querying and analysis of genomic data

Identifying genome-wide translated open reading frames using ribosome profiling

Single-cell Bisulfite Sequencing Data Mapping

A pipeline for high-confidence RNA-seq gene co-expression network inference

NGS pipeline

Multiple-replica multiple-condition ChIPSeq pipeline

Mirror of Daniel Zilberman Lab's bioinformatics tools

perl script for BS-Seq analysis

code for paper "Natural variation in DNA methylation homeostasis and the emergence of epialleles"

Development fork. Head fork here >>>

Perl scripts for next gen sequencing data manipulations.