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Can we use ensembldb to convert transcriptomic bam to genomic bam? #152

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smk5g5 opened this issue Mar 29, 2024 · 1 comment
Open

Can we use ensembldb to convert transcriptomic bam to genomic bam? #152

smk5g5 opened this issue Mar 29, 2024 · 1 comment

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@smk5g5
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smk5g5 commented Mar 29, 2024

Hi,

I have a bam file (nanopore transcripts) aligned to cdna and I need to convert it to genomic coordinates. Is there a way to use ensembldb to do that? Kindly let me know.

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@jorainer
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jorainer commented Apr 3, 2024

no, sorry, ensembldb can not do that. maybe you can do that with the bamtools or the Bioconductor Rsamtools package?

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@jorainer @smk5g5