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, à 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).