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@phasegenomics

Phase Genomics

Phase Genomics creates genomic and metagenomic technologies. Open source software is hosted on github

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  1. FALCON-Phase FALCON-Phase Public

    FALCON-Phase integrates PacBio long-read assemblies with Phase Genomics Hi-C data to create phased, diploid, chromosome-scale scaffolds

    C 74 17

  2. juicebox_scripts juicebox_scripts Public

    A collection of scripts for working with Hi-C data, Juicebox, and other genomic file formats

    Python 65 10

  3. hic_qc hic_qc Public

    A (very) simple script to QC Hi-C data.

    Python 25 5

  4. matlock matlock Public

    Simple tools for working with Hi-C data

    C 16 1

  5. polar_star polar_star Public

    long-read depth breaking

    Python 11

  6. update_assembly update_assembly Public

    Generate two phased Juicebox .assembly files from one master .assembly for FALCON-Phase

    Python 3 2

Repositories

Showing 10 of 10 repositories
  • hic_qc Public

    A (very) simple script to QC Hi-C data.

    phasegenomics/hic_qc’s past year of commit activity
    Python 25 AGPL-3.0 5 0 1 Updated Dec 17, 2024
  • phasegenomics.github.io Public

    Phase Genomics Software & Bioinformatics Documentation

    phasegenomics/phasegenomics.github.io’s past year of commit activity
    HTML 0 AGPL-3.0 0 0 0 Updated Oct 28, 2024
  • proxiphage_paper Public
    phasegenomics/proxiphage_paper’s past year of commit activity
    TeX 0 0 0 0 Updated Jun 15, 2021
  • juicebox_scripts Public

    A collection of scripts for working with Hi-C data, Juicebox, and other genomic file formats

    phasegenomics/juicebox_scripts’s past year of commit activity
    Python 65 AGPL-3.0 10 3 0 Updated May 22, 2021
  • FALCON-Phase Public

    FALCON-Phase integrates PacBio long-read assemblies with Phase Genomics Hi-C data to create phased, diploid, chromosome-scale scaffolds

    phasegenomics/FALCON-Phase’s past year of commit activity
    C 74 17 8 1 Updated Nov 12, 2020
  • update_assembly Public

    Generate two phased Juicebox .assembly files from one master .assembly for FALCON-Phase

    phasegenomics/update_assembly’s past year of commit activity
    Python 3 AGPL-3.0 2 0 0 Updated Feb 4, 2020
  • annotation_mover Public

    Script for porting annotations from one set of scaffolds (usually chromosome-scale scaffolds) to another set of scaffolds generated from the exact same set of contigs.

    phasegenomics/annotation_mover’s past year of commit activity
    Python 1 AGPL-3.0 0 1 0 Updated Jul 3, 2019
  • matlock Public

    Simple tools for working with Hi-C data

    phasegenomics/matlock’s past year of commit activity
    C 16 AGPL-3.0 1 9 1 Updated Dec 19, 2018
  • polar_star Public

    long-read depth breaking

    phasegenomics/polar_star’s past year of commit activity
    Python 11 AGPL-3.0 0 6 0 Updated Apr 19, 2018
  • fungus_heatmap Public

    Repository containing an R script used in figure generation

    phasegenomics/fungus_heatmap’s past year of commit activity
    R 0 AGPL-3.0 0 0 0 Updated Feb 23, 2018

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