asn2ff1
Convert asn.1 biological data to a flat format (old version)
Usage
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]
Overview
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
Releases
12 releases since Debian 3.0 (Woody); the text changed 2 times.