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@genomewalker
genomewalker committed Nov 26, 2023
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Expand Up @@ -348,8 +348,8 @@ One would run filterBAM `lca` as follows:
filterBAM lca --bam c55d4e2df1.dedup.filtered.bam --names ./taxonomy/names.dmp --nodes ./taxonomy/nodes.dmp --acc2taxid ./taxonomy/acc2taxid.map.gz --threads 10 --lca-rank genus
```
**--names**: Names dmp file from taxonomy
**--nodes**: Nodes dmp file from taxonomy
**--acc2taxid**: acc2taxid file from taxonomy
**--rank-lca**: Rank to use for LCA calculation
**--scale**: Scale taxonomic abundance by this factor; suffix K/M recognized
**--names**: Names dmp file from taxonomy
**--nodes**: Nodes dmp file from taxonomy
**--acc2taxid**: acc2taxid file from taxonomy
**--rank-lca**: Rank to use for LCA calculation
**--scale**: Scale taxonomic abundance by this factor; suffix K/M recognized

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