https://github.com/vjcitn/biochprclk

A look at the pangenome consortium resources in AnVIL
https://github.com/vjcitn/biochprclk

bioconductor pangenome

Last synced: about 2 months ago
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A look at the pangenome consortium resources in AnVIL

• Host: GitHub
• URL: https://github.com/vjcitn/biochprclk
• Owner: vjcitn
• Created: 2023-07-16T13:30:58.000Z (over 1 year ago)
• Default Branch: main
• Last Pushed: 2023-08-04T13:57:02.000Z (over 1 year ago)
• Last Synced: 2024-05-11T07:41:47.187Z (8 months ago)
• Topics: bioconductor, pangenome
• Language: R
• Homepage: https://vjcitn.github.io/BiocHPRClk/
• Size: 45 MB
• Stars: 0
• Watchers: 2
• Forks: 0
• Open Issues: 0
• Metadata Files:
  • Readme: README.md

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README

        
# BiocHPRClk

A look at the pangenome consortium resources in AnVIL

As of July 17 2023:

- when used with a suitable copy of [the HPRC AnVIL workspace](https://app.terra.bio/#workspaces/anvil-datastorage/AnVIL_HPRC), `grabtabs()` provides interactive access to contents of all data tables,

exposing Google Storage identifiers for BAM, VCF, minigraph, etc.

- `data(vcf1Mb)` provides a VariantAnnotation CollapsedVCF instance with calls for the first 1Mb

of chr1, using GRCh38 addresses

- `data(minigr_GRCh38)` provides a GRanges that encodes the bb.bed file for HPRC 1.0 with

bubble addresses in GRCh38

- `data(minigr_chm13)` provides a GRanges that encodes the bb.bed file for HPRC 1.0 with (more)

bubble addresses in T2T (CHM13)