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add: readme for delstop

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kuoi 2024-12-09 17:37:16 +11:00
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README.md
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@ -135,15 +135,21 @@ grep '>' Reference.fasta | sed "s@>@@g" > genes
### sortdiamond
Usage: sortdiamond diamond_output.m8 generated.fasta sseq,qstart,qend,bitscore/evalue,qseq(optional, default 1,6,7,11,17, start from 0) bitscore/evalue(optional, default bitscore)
Usage: `sortdiamond diamond_output.m8 generated.fasta sseq,qstart,qend,bitscore/evalue,qseq(optional, default 1,6,7,11,17, start from 0) bitscore/evalue(optional, default bitscore)`
Default sseq is column 2, qstart is column 8, etc.
Diamond default output format (--outfmt 6) does not contain qseq, you must custom the output format under output format 6.
### delstop
`delstop <fasta_aa> <fasta_nt> --delete`
Delete StopCondon generated by Macse. fasta_aa and fasta_nt should be macse output files, `--delete` should be used when downstream software is tirmal
### splitfasta
Usage: splitfasta sample.fasta
Usage: `splitfasta sample.fasta`
It always creates directories in the path that you run the splitfasta, and puts split fasta into the directory.