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    18 repositories

    • SVsig

      Public
      drivers2dstructural-variation
      MATLAB
      •
      GNU Affero General Public License v3.0
      •1•2•0•0•Updated Aug 1, 2025Aug 1, 2025

    • dalin_et_al_dsb_repair_replication

      Public
      Code for analyses in Dalin et al. (2025), Mutations and structural variants arising during double-strand break repair, PNAS.
      MIT License
      •0•0•0•0•Updated Jul 25, 2025Jul 25, 2025

    • GaTSV

      Public
      R
      •
      GNU General Public License v2.0
      •1•10•0•0•Updated May 30, 2025May 30, 2025

    • TangentXY

      Public
      An extension of the Tangent method that allows for improved normalization of the sex chromosomes.
      R
      •0•0•0•0•Updated Apr 16, 2025Apr 16, 2025

    • TangentXY_scripts

      Public
      R
      •0•0•0•0•Updated Apr 13, 2025Apr 13, 2025

    • pomt_manuscript_code

      Public
      0•0•0•0•Updated Mar 23, 2025Mar 23, 2025

    • hcmi_sv_consensus_public

      Public
      Python
      •0•0•0•0•Updated Jan 30, 2025Jan 30, 2025

    • hcmi_copy_number_consensus

      Public
      Python
      •0•0•0•0•Updated Jan 30, 2025Jan 30, 2025

    • crispr_seq_deconvolution

      Public
      Python
      •0•0•0•0•Updated Dec 24, 2024Dec 24, 2024

    • gatk4-data-processing

      Public
      Workflows for processing high-throughput sequencing data for variant discovery with GATK4 and related tools
      WDL
      •
      BSD 3-Clause "New" or "Revised" License
      •78•0•0•0•Updated Jun 7, 2024Jun 7, 2024

    • BISCUT-py3

      Public
      Python
      •5•12•3•1•Updated Apr 25, 2024Apr 25, 2024

    • ancestry_manuscript_code

      Public
      Jupyter Notebook
      •
      GNU General Public License v2.0
      •0•0•0•0•Updated Apr 25, 2024Apr 25, 2024

    • gistic_reference

      Public
      MATLAB
      •0•0•0•0•Updated Mar 27, 2024Mar 27, 2024

    • ascets

      Public
      This repository contains the code to run the ASCETS arm-level copy number events caller for targeted sequencing data. ASCETS produces arm-level copy-number variant calls and arm-level weighted average log2 segment means from segmented copy number data.
      cnvtargeted-sequencing
      R
      •
      GNU General Public License v2.0
      •1•16•0•0•Updated Jan 31, 2024Jan 31, 2024

    • ccnu_prism

      Public
      Repository for all of the analysis for the CCNU project
      0•0•0•0•Updated Jul 28, 2023Jul 28, 2023

    • AlkylatingAgentResistanceAnalysis

      Public
      R
      •1•0•0•0•Updated Mar 11, 2022Mar 11, 2022

    • GATK_CN_CWL

      Public
      Implementation of the GATK copy number pipeline in CWL (ported from WDL)
      gatkwdlgdccwlcnv
      Common Workflow Language
      •1•0•0•0•Updated Feb 3, 2022Feb 3, 2022

    • oncoprint-template

      Public
      Template Code for OncoPrint
      graphicsoncopanel
      R
      •0•0•0•0•Updated Oct 26, 2020Oct 26, 2020