soedinglab/SNPtarget

Name: SNPtarget

Owner: Söding Lab

Description: A statistical approach to predict enhancer-gene interactions

Created: 2017-01-13 22:24:20.0

Updated: 2017-01-17 14:33:01.0

Pushed: 2017-01-17 14:40:15.0

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Size: 81

Language: Python

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README

SNPtarget (currently under construction)

SNPtarget is a pipeline for predicting enhancer-gene interactions based on statistical signatures of DNase-I hypersensitivity across more than 100 tissues, genomic distance and HiC interaction frequency.

Repository structure

The folder enh_scripts contains a python package of the statistical model and utility scripts.

The pipelines directory contains two pipelines for running on an LSF cluster.

• SNPpipeline (prediction of target genes of 1000 Genomes SNPs)
• FullGenomePipeline (prediction of 100bp segmentation of the full human genome)