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Sol Shenker's Projects

cfdscore icon cfdscore

R package that implements the bulged CFD score calculation described by Doench et al 2016

crossbrowse icon crossbrowse

browse genomics data for multiple reference sequences simultaneously

gatk icon gatk

Official code repository for GATK versions 4 and up

gridsearch4j icon gridsearch4j

utility that uses reflection to exhaustively set all cominations of field values on a target object

gridss icon gridss

GRIDSS: the Genomic Rearrangement IDentification Software Suite

htsjdk icon htsjdk

A Java API for high-throughput sequencing data (HTS) formats.

isoscm icon isoscm

Transcript assembly tool using multiple change-point inference to improve 3'UTR annotation

nextflow icon nextflow

A DSL for data-driven computational pipelines

sampling icon sampling

command line utility for uniformly sampilng from a stream with known number of elements

sciclone icon sciclone

An R package for inferring the subclonal architecture of tumors

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