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trna2sap(1) [debian man page]

TRNA2SAP(1)						     NCBI Tools User's Manual						       TRNA2SAP(1)

NAME
trna2sap - convert tRNAscan-SE output to an ASN.1 Seq-annot object SYNOPSIS
trna2sap [-] [-a] [-c str] [-f str] [-i filename] [-j] [-m str] [-n str] [-o filename] [-p dir] [-r dir] [-s] [-t str] [-u] [-x str] DESCRIPTION
trna2sap reads a text file produced by tRNAscan-SE and produces a corresponding ASN.1 Seq-annot in the format understood by other NCBI tools. OPTIONS
A summary of options is included below. - Print usage message -a Add tRNAscan-SE citation -c str Comment -f str Substring Filter -i filename Single Input file (standard input by default) -j Just produce a five-column feature table, a la trna2tbl(1). -m str ReMark -n str Annotation Name (normally "tRNA"). -o filename Single Output file (standard output by default) -p dir Path to files -r dir Path for Results -s Ignore Pseudo tRNAs -t str Annotation Title (normally "tRNAscan-SE"). -u Ignore Undetermined tRNAs -x str File selection suffix with -p (.trna by default). AUTHOR
The National Center for Biotechnology Information. SEE ALSO
sequin(1), tbl2asn(1), trna2tbl(1). NCBI
2006-01-11 TRNA2SAP(1)

Check Out this Related Man Page

ASN2FSA(1)						     NCBI Tools User's Manual							ASN2FSA(1)

NAME
asn2fsa - convert biological sequence data from ASN.1 to FASTA SYNOPSIS
asn2fsa [-] [-A acc] [-D] [-E] [-H] [-L filename] [-T] [-a type] [-b] [-c] [-d path] [-e N] [-f path] [-g] [-h filename] [-i filename] [-k] [-l] [-m] [-o filename] [-p path] [-q filename] [-r] [-s] [-u] [-v filename] [-x str] [-z] DESCRIPTION
asn2fsa converts biological sequence data from ASN.1 to FASTA. OPTIONS
A summary of options is included below. - Print usage message -A acc Accession to fetch -D Use Dash for Gap -E Extended Seq-ids -H HTML spans -L filename Log file -T Use Threads -a type Input ASN.1 type: a Automatic (default) z Any e Seq-entry b Bioseq s Bioseq-set m Seq-submit t batch processing (suitable for official releases; autodetects specific type) -b Bioseq-set is Binary -c Bioseq-set is Compressed -d path Path to ReadDB Database -e N Line length (70 by default; may range from 10 to 120) -f path Path to indexed FASTA data -g Expand delta gaps into Ns -h filename Far component cache output file name -i filename Single input file (standard input by default) -k Local fetching -l Lock components in advance -m Master style for near segmented sequences -o filename Nucleotide Output file name -p path Path to ASN.1 Files -q filename Quality score output file name -r Remote fetching from NCBI -s Far genomic contig for quality scores -u Recurse -v filename Protein output file name -x str File selection substring (.ent by default) [String] -z Print quality score gap as -1 AUTHOR
The National Center for Biotechnology Information. SEE ALSO
asn2all(1), asn2asn(1), asn2ff(1), asn2gb(1), asn2xml(1), asndhuff(1). NCBI
2011-09-02 ASN2FSA(1)
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