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@HuntsmanCancerInstitute

Huntsman Cancer Institute - Cancer Bioinformatics Shared Resource

The Cancer Bioinformatics Shared Resource (CBI) supports both research and translational bioinformatics at HCI.

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  1. USeq USeq Public

    180+ Java applications for analyzing next generation sequencing data from ChIPSeq, RNASeq, BisSeq, DNASeq, variant annotation/ filtering, alignment/VCF QC, capture array design, IGV/ DAS2/IGB/UCSC …

    Java 18 4

  2. hciR hciR Public

    R package for RNA-seq workflows at HCI

    R 13 1

  3. Workflows Workflows Public

    Snakemake workflows for best practice genomic analysis

    Shell 7 4

  4. MultiRepMacsChIPSeq MultiRepMacsChIPSeq Public

    Multiple-replica multiple-condition Macs2 ChIPSeq wrapper

    Perl 7 1

  5. GQuery GQuery Public

    GQuery is a software tool for rapidly querying large numbers of bgzip compressed, tabix indexed genomic data files e.g. vcf, maf, bed, bedGraph, etc. from multiple species with different genome bui…

    C 2

  6. AwsApps AwsApps Public

    Genomic data focused toolkit for working with Amazon AWS S3 and EC2

    Java 1

Repositories

Showing 10 of 26 repositories
  • Workflows Public

    Snakemake workflows for best practice genomic analysis

    HuntsmanCancerInstitute/Workflows’s past year of commit activity
    Shell 7 4 0 0 Updated May 1, 2025
  • hci-bio-repository Public

    internal scripts for bio-repo management

    HuntsmanCancerInstitute/hci-bio-repository’s past year of commit activity
    Perl 0 Artistic-2.0 0 0 0 Updated Apr 25, 2025
  • USeq Public

    180+ Java applications for analyzing next generation sequencing data from ChIPSeq, RNASeq, BisSeq, DNASeq, variant annotation/ filtering, alignment/VCF QC, capture array design, IGV/ DAS2/IGB/UCSC file manipulation, etc. Both GUI and cmd line interfaces.

    HuntsmanCancerInstitute/USeq’s past year of commit activity
    Java 18 4 1 0 Updated Apr 8, 2025
  • MultiRepMacsChIPSeq Public

    Multiple-replica multiple-condition Macs2 ChIPSeq wrapper

    HuntsmanCancerInstitute/MultiRepMacsChIPSeq’s past year of commit activity
    Perl 7 Artistic-2.0 1 0 0 Updated Mar 24, 2025
  • hciR2 Public

    Extra functions for hciR package

    HuntsmanCancerInstitute/hciR2’s past year of commit activity
    R 0 0 0 0 Updated Mar 19, 2025
  • hciR Public

    R package for RNA-seq workflows at HCI

    HuntsmanCancerInstitute/hciR’s past year of commit activity
    R 13 1 0 0 Updated Mar 19, 2025
  • AutoAnalysis Public

    AutoAnalysis orchestrates auto analysis of sequencing files in GNomEx Experiment using two different daemons running on HCI and CHPC servers. This is a custom toolkit for internal use at the University of Utah.

    HuntsmanCancerInstitute/AutoAnalysis’s past year of commit activity
    Java 0 1 0 0 Updated Feb 25, 2025
  • UMIScripts Public

    Simple scripts for handling Unique Molecular Indexes in Fastq and Bam files

    HuntsmanCancerInstitute/UMIScripts’s past year of commit activity
    Perl 6 Artistic-2.0 0 0 0 Updated Oct 28, 2024
  • AwsApps Public

    Genomic data focused toolkit for working with Amazon AWS S3 and EC2

    HuntsmanCancerInstitute/AwsApps’s past year of commit activity
    Java 1 BSD-2-Clause 0 0 1 Updated Sep 16, 2024
  • hciRdata Public

    Datasets for hciR package

    HuntsmanCancerInstitute/hciRdata’s past year of commit activity
    R 0 0 0 0 Updated Jun 20, 2024
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