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 asn2gb(1) instead.
OPTIONS
A summary of options is included below.
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- |
Print usage message |
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-A X |
Show region starting at X (default is 0) |
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-B X |
Show region ending at X (default is last position) |
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-C |
Show Bankit comments |
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-G |
Output is one top bioseq only in genome view |
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-L F |
Use old (pre-Genbank 127.0) LOCUS line format |
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-M |
Output is map bioseqs only |
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-R |
For GenBank Release |
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-V F |
Don’t use VERSION |
-a filename
Filename for ASN.1 input (default is stdin)
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-b |
Input asnfile in binary mode |
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-d |
Use SeqMgr indexing |
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-e |
Input is a Seq-entry |
-f b/p/e/s/x/z
Output Format:
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b |
GenBank (default) |
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p |
GenPept |
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e |
EMBL |
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s |
PseudoEMBL |
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x |
GenBankSelect |
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z |
EMBLPEPT |
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-g |
Show gi numbers
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-h F |
Hide sequence |
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-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:
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r |
release (default) |
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d |
dump |
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s |
Sequin |
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c |
Chromoscope |
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k |
dir-sub-debug |
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l |
dir-sub |
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e |
revise |
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p |
partial report |
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-n F |
Strict gene_binding
-o filename
Output Filename (default is stdout)
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-p F |
Omit new gene features |
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-q |
Output is one top bioseq only |
-r filename
Output error logfile (default is stderr)
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-s |
Input is a Seq-submit |
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-t |
Show verbose message text |
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-v F |
Suppress error messages |
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-w |
Use HTML output format |
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-y |
Print help format only |
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-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).