New York Genome Center

lancet

Microassembly based somatic variant caller for NGS data

Conpair

Concordance and contamination estimator for tumor–normal pairs

taxmaps

Ultra-efficient taxonomic mapping of NGS data

Lancet2

v2.x of the microassembly based somatic variant caller

SCANVIS

SCANVIS - a toolkit for SCoring, ANnotating and VISualizing splice junctions

telomeasure

Telomeasure estimates average telomere length from whole genome sequencing (WGS) BAM files.

topmed_unmapped

absinthe

nygc-short-alignment-marking

ProstateBrainMet_WGS_paper_figures

This repository contains the code necessary for reproducing the figures and custom analysis in the following manuscript: Evolution of Structural Rearrangements in Prostate Cancer Intracranial Metastases

compass

cotton

A library of useful functions for managing deployments with Fabric.

metronome

Visual Data Exploration for Genomic Medicine

nygc-PDX-mouse-read-filter

pedselect

Select most informative individuals to sequence from a pedigree

UrothelialCancer_WGS_paper_figures

This repository contains the code necessary for reproducing the figures and custom analysis in the following manuscript: The Interplay between Mutagenesis and Extrachromosomal DNA Shapes Urothelial Cancer Evolution