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New York Genome Center

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  1. lancet lancet Public

    Microassembly based somatic variant caller for NGS data

    C 153 33

  2. Conpair Conpair Public

    Concordance and contamination estimator for tumor–normal pairs

    Python 52 27

  3. taxmaps taxmaps Public

    Ultra-efficient taxonomic mapping of NGS data

    Python 51 11

  4. Lancet2 Lancet2 Public

    v2.x of the microassembly based somatic variant caller

    C++ 14 1

  5. SCANVIS SCANVIS Public

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

    R 7 1

  6. telomeasure telomeasure Public

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

    Python 3 1

Repositories

Showing 10 of 16 repositories
  • Lancet2 Public

    v2.x of the microassembly based somatic variant caller

    nygenome/Lancet2’s past year of commit activity
    C++ 14 BSD-3-Clause 1 0 0 Updated Jun 10, 2024
  • telomeasure Public

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

    nygenome/telomeasure’s past year of commit activity
    Python 3 BSD-3-Clause 1 0 0 Updated May 6, 2024
  • UrothelialCancer_WGS_paper_figures Public

    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

    nygenome/UrothelialCancer_WGS_paper_figures’s past year of commit activity
    Jupyter Notebook 0 BSD-3-Clause 0 0 0 Updated Feb 27, 2024
  • ProstateBrainMet_WGS_paper_figures Public

    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

    nygenome/ProstateBrainMet_WGS_paper_figures’s past year of commit activity
    HTML 1 BSD-3-Clause 0 0 0 Updated Jun 15, 2023
  • compass Public
    nygenome/compass’s past year of commit activity
    Python 0 BSD-3-Clause 0 0 0 Updated Apr 3, 2023
  • lancet Public

    Microassembly based somatic variant caller for NGS data

    nygenome/lancet’s past year of commit activity
    C 153 33 0 0 Updated Jun 23, 2022
  • absinthe Public
    nygenome/absinthe’s past year of commit activity
    Python 1 BSD-3-Clause 0 0 0 Updated Nov 9, 2021
  • taxmaps Public

    Ultra-efficient taxonomic mapping of NGS data

    nygenome/taxmaps’s past year of commit activity
    Python 51 11 0 1 Updated Mar 26, 2021
  • nygc-short-alignment-marking Public
    nygenome/nygc-short-alignment-marking’s past year of commit activity
    1 0 1 0 Updated Nov 25, 2020
  • topmed_unmapped Public
    nygenome/topmed_unmapped’s past year of commit activity
    Python 3 BSD-3-Clause 0 0 0 Updated Nov 13, 2020
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