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Published 20 hours ago • verified publisher icon COMBINE-lab

viral contigs abundance

Open Biofarmer opened this issue 3 years ago • 1 comments
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Hi, thanks for your very useful tool, and the one I am using it version 1.9.0. I have extracted viral contigs from metagenomic sequencing data of stool, and now want to estimate the relative abundance of each viral contig. May I ask whether the command salmon quant with option '--meta' is suitable for this analysis? Like the output TPM value for each transcript?

Thanks a million.

Biofarmer avatar Sep 19 '22 14:09 Biofarmer

I have been stuck with something similar. Although they have provided the metagenomics flag, however, it lacks documentation. Plus, they don't address queries that reflect poorly on developers. Did you find a solution to this?

JSSaini avatar Feb 28 '23 18:02 JSSaini