Skip to content

@dbmi-bgm Computational Genome Analysis Platform

Change the repository type filter

All

    Repositories list

    43 repositories

    • foursight-cgap

      Public
      Providing insight into your application using AWS infrastructure.
      Python
      •
      MIT License
      •0•2•0•8•Updated Nov 26, 2024Nov 26, 2024

    • cgap-portal

      Public
      Data portal for the DBMI-BGM CGAP initiative
      Python
      •
      MIT License
      •0•7•0•47•Updated Nov 21, 2024Nov 21, 2024

    • magma

      Public
      A collection of tools to manage meta-workflows automation
      Python
      •
      MIT License
      •1•0•0•1•Updated Nov 19, 2024Nov 19, 2024

    • granite

      Public
      A collection of software to work with genomic variants
      vcfvariantssnvvariant-filtrationvariant-analysissnvstriode-novo-mutationsingle-nucleotide-variationde-novo-mutations
      Python
      •
      MIT License
      •1•6•0•1•Updated Sep 11, 2024Sep 11, 2024

    • udn-browser

      Public
      JavaScript
      •
      MIT License
      •0•0•0•0•Updated Aug 13, 2024Aug 13, 2024

    • SubmitCGAP

      Public
      Support for file submissions related to CGAP.
      Python
      •
      MIT License
      •1•0•0•2•Updated Jul 3, 2024Jul 3, 2024

    • cgap-pipeline-upstream-sentieon

      Public
      upstream pipeline using Sentieon
      Shell
      •
      MIT License
      •0•0•0•0•Updated Mar 21, 2024Mar 21, 2024

    • cgap-pipeline-base

      Public
      base pipeline components
      Python
      •
      GNU General Public License v3.0
      •1•0•0•1•Updated Feb 15, 2024Feb 15, 2024

    • portal-pipeline-utils

      Public
      pipeline utilities
      Python
      •
      MIT License
      •1•0•0•0•Updated Feb 14, 2024Feb 14, 2024

    • cgap-pipeline-main

      Public
      main repository for cgap pipeline
      Makefile
      •
      GNU General Public License v3.0
      •0•0•1•0•Updated Dec 4, 2023Dec 4, 2023

    • cgap-pipeline-SNV-germline

      Public
      pipeline for germline single nucleotide variants and small indels
      Common Workflow Language
      •
      GNU General Public License v3.0
      •0•0•0•1•Updated Oct 31, 2023Oct 31, 2023

    • cgap-pipeline-upstream-GATK

      Public
      upstream pipeline using GATK
      Common Workflow Language
      •
      GNU General Public License v3.0
      •0•0•0•0•Updated Oct 12, 2023Oct 12, 2023

    • higlass-cohort

      Public
      Cohort track for Higlass
      JavaScript
      •
      MIT License
      •0•1•0•0•Updated Sep 27, 2023Sep 27, 2023

    • cgap-pipeline-cohort

      Public
      Python
      •
      GNU General Public License v3.0
      •1•0•0•0•Updated Sep 14, 2023Sep 14, 2023

    • cgap-governance

      Public
      Governance, legal and policy information related to the Computational Genome Analysis Platform (CGAP)
      MIT License
      •2•0•0•0•Updated Sep 5, 2023Sep 5, 2023

    • .github

      Public
      Contains README for the organization.
      1•0•0•0•Updated Sep 5, 2023Sep 5, 2023

    • cgap-pipeline-SV-somatic

      Public
      pipeline for somatic structural variants
      R
      •
      GNU General Public License v3.0
      •0•0•0•2•Updated Aug 16, 2023Aug 16, 2023

    • cgap-pipeline-hartwig

      Public
      Python
      •
      GNU General Public License v3.0
      •0•0•0•0•Updated Aug 1, 2023Aug 1, 2023

    • cgap-pipeline-somatic-sentieon

      Public
      pipeline for somatic SNVs, INDELs, and SVs using Sentieon
      Shell
      •
      MIT License
      •0•0•0•0•Updated Jul 27, 2023Jul 27, 2023

    • higlass-data

      Public
      Package that creates data files for CGAP's Higlass browsers
      Python
      •
      MIT License
      •0•0•0•0•Updated Jul 11, 2023Jul 11, 2023

    • higlass-general-vcf

      Public
      Plugin track that can visualize general VCF files
      JavaScript
      •
      MIT License
      •0•0•0•0•Updated Jun 28, 2023Jun 28, 2023

    • cgap-pipeline-SNV-somatic

      Public
      pipeline for somatic single-nucleotide variants and small indels
      Python
      •
      GNU General Public License v3.0
      •0•2•0•1•Updated May 23, 2023May 23, 2023

    • cgap-pipeline-SV-germline

      Public
      pipeline for germline structural variants
      Python
      •
      GNU General Public License v3.0
      •0•3•0•0•Updated May 16, 2023May 16, 2023

    • higlass-sv

      Public
      Display Structural Variants in Higlass
      JavaScript
      •
      MIT License
      •0•0•0•0•Updated Apr 7, 2023Apr 7, 2023

    • cgap-pipeline-contribution

      Public
      pipeline modules contributed to cgap through external collaboration
      Shell
      •
      GNU General Public License v3.0
      •0•1•0•0•Updated Mar 29, 2023Mar 29, 2023

    • cgap-scripts

      Public
      Python
      •0•0•0•0•Updated Mar 28, 2023Mar 28, 2023

    • xTea-germline

      Public
      pipeline implementation of xTea algorithm to detect transposable element insertions
      Dockerfile
      •0•1•0•0•Updated Mar 9, 2023Mar 9, 2023

    • cgap-pipeline-validation

      Public
      Python
      •1•0•0•0•Updated Feb 16, 2023Feb 16, 2023

    • cgap-issues

      Public
      A place to collect cross-repo issues, questions, and bug reports related to the CGAP project
      0•0•0•1•Updated Feb 1, 2023Feb 1, 2023

    • cgap-annotations

      Public
      Python
      •1•0•0•0•Updated Jan 31, 2023Jan 31, 2023