asnmacro(1) [debian man page]

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

NAME

       asnmacro - process ASN.1 biological data per Sequin macros

SYNOPSIS

       asnmacro [-] [-b] [-d] [-e] [-i filename] -m filename [-o filename] [-p path] [-r path] [-s str] [-x str]

DESCRIPTION

       asnmacro is a command-line tool to run Sequin macros on annotated biological sequence data represented according to NCBI's ASN.1 specifica-
       tions.

OPTIONS

       A summary of options is included below.

       -      Print usage message

       -b     Input is Binary

       -d     Output is binary

       -e     Input is a Seq-Entry

       -i filename
	      Single input file

       -m filename
	      Macro file

       -o filename
	      Single Output file

       -p path
	      Path to multiple input files

       -r path
	      Path for Results when processing multiple files

       -s str Suffix for stripped (output) files

       -x str Suffix for input files with -p (.sqn by default)

AUTHOR

       The National Center for Biotechnology Information.

SEE ALSO

       Psequin(1).

NCBI
								    2011-09-02							       ASNMACRO(1)

ASN2FF(1)						     NCBI Tools User's Manual							 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 asn2gb(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).

NCBI
								    2005-05-16								 ASN2FF(1)