asn2ff(1)

NAME

asn2ff - convert ASN.1 biological data to a flat format (old version)

SYNOPSIS

asn2ff [-] [-A X] [-B X] [-C] [-G] [-L F] [-M] [-R] [-V F] [-a filename] [-b] [-d] [-e] [-f b/p/e/s/x/z] [-g] [-h F] [-k F] [-l filename] [-m r/d/s/c/k/l/e/p] [-n F] [-o filename] [-p F] [-q] [-r filename] [-s] [-t] [-v F] [-w] [-y] [-z]

DESCRIPTION

asn2ff converts descriptions of biological sequences from NCBI's ASN.1 format to one of several flat-file formats. This program is built around a deprecated interface; please use asn2gbFP(1) instead.

OPTIONS

A summary of options is included below.

-

Print usage message

-A X

Show region starting at X (default is 0)

-B X

Show region ending at X (default is last position)

-C

Show Bankit comments

-G

Output is one top bioseq only in genome view

-L F

Use old (pre-Genbank 127.0) LOCUS line format

-M

Output is map bioseqs only

-R

For GenBank Release

-V F

Don't use VERSION

-a filename

Filename for ASN.1 input (default is stdin)

-b

Input asnfile in binary mode

-d

Use SeqMgr indexing

-e

Input is a Seq-entry

-f b/p/e/s/x/z

Output Format:

b

GenBank (default)

p

GenPept

e

EMBL

s

PseudoEMBL

x

GenBankSelect

z

EMBLPEPT

-g

Show gi numbers

-h F

Hide sequence

-k F

Don't use complex sets (phy-set,mut-set, pop-set)

-l filename

Log errors to filename

-m r/d/s/c/k/l/e/p

Output mode:

r

release (default)

d

dump

s

Sequin

c

Chromoscope

k

dir-sub-debug

l

dir-sub

e

revise

p

partial report

-n F

Strict gene_binding

-o filename

Output Filename (default is stdout)

-p F

Omit new gene features

-q

Output is one top bioseq only

-r filename

Output error logfile (default is stderr)

-s

Input is a Seq-submit

-t

Show verbose message text

-v F

Suppress error messages

-w

Use HTML output format

-y

Print help format only

-z

New algorithm for orgnames

AUTHOR

The National Center for Biotechnology Information.

SEE ALSO

asn2all(1), asn2asn(1), asn2fsa(1), asn2gb(1), asn2xml(1), asndhuff(1).