SIPeS

Description

sipes website

This module allows you to use SIPeS. With the advent of sequencing techniques, chromatin immunoprecipitation combined with high throughput sequencing (ChIP-Seq) is becoming a powerful tool to study protein-DNA interactions on genome-wide scale.SIPeS (Site Identification from Paired-end Sequencing), a novel algorithm, allows researchers to identify transcript factor binding sites from paired-end sequencing reads. SIPeS uses a dynamic baseline directly through the piling up of fragments to effectively find peaks, overcoming the disadvantage of estimating the average length of DNA fragments from singled-end sequencing achieving more powerful prediction binding sites with high sensitivity and specificity.

Environment Modules

Run module spider sipes to find out what environment modules are available for this application.

Environment Variables

• HPC_SIPES_DIR - installation directory
• HPC_SIPES_BIN - executable directory

Categories

biology, chip-seq