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Support Arriba for other genomes #90

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kelly-sovacool opened this issue Jan 11, 2024 · 2 comments
Open

Support Arriba for other genomes #90

kelly-sovacool opened this issue Jan 11, 2024 · 2 comments
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@kelly-sovacool
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kelly-sovacool commented Jan 11, 2024

It only supports hg38 and mm10 by default. We may need to reach out to the Arriba maintainer for help creating these fusion files for other genome annotations.

"FUSIONBLACKLIST": "s3://nciccbr/Resources/RNA-seq/arriba/blacklist_hg38_GRCh38_v2.0.0.tsv.gz",
"FUSIONCYTOBAND": "s3://nciccbr/Resources/RNA-seq/arriba/cytobands_hg38_GRCh38_v2.0.0.tsv",
"FUSIONPROTDOMAIN": "s3://nciccbr/Resources/RNA-seq/arriba/protein_domains_hg38_GRCh38_v2.0.0.gff3"

@kopardev kopardev added the RENEE RepoName label Jan 11, 2024
@kelly-sovacool kelly-sovacool added the enhancement New feature or request label Jan 11, 2024
@kopardev
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Linked to #12

@kopardev kopardev added this to the 2024-06 milestone May 21, 2024
@kelly-sovacool
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there is likely an if statement checking for the genome and only running arriba on hg38 -- will need to remove this

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