snap-hmm1
Semi-hmm-based nucleic acid parser
Usage
snap-hmm [options]
<HMM
file>
<FASTA
file>
[options]
Options
-
-help -
report useful information
-
-lcmask -
treat lowercase as N
-
-plus -
predict on plus strand only
-
-minus -
predict on minus strand only
-
-gff -
output annotation as GFF
-
-ace -
output annotation as ACED
-
-quiet -
do not send progress to STDERR
-
-aa <file> -
create FASTA file of proteins
-
-tx <file> -
create FASTA file of transcripts
-
-xdef <file> -
external definitions
-
-name <string> -
name for the gene [default snap]