Skip site navigation (1)Skip section navigation (2)

FreeBSD Manual Pages

  
 
  

home | help
GENE2XML(1)		   NCBI	Tools User's Manual		   GENE2XML(1)

NAME
       gene2xml	- convert NCBI Entrez Gene ASN.1 into XML

SYNOPSIS
       gene2xml	 [-]  [-b]  [-c]  [-i filename]	 [-l]  [-o filename] [-p path]
       [-r path] [-t N]	[-x] [-y] [-z]

DESCRIPTION
       gene2xml	is a stand-alone program that converts Entrez Gene ASN.1  into
       XML.   Entrez  Gene data	are stored as compressed binary	Entrezgene-Set
       ASN.1 files on the NCBI ftp site, and have the suffix  .ags.gz.	 These
       are several-fold	smaller	than compressed	XML files, resulting in	a sig-
       nificant	savings	of disk	storage	and network  bandwidth.	  Normal  pro-
       cessing by gene2xml produces text XML files with	the same name but with
       .xgs as the suffix.

OPTIONS
       A summary of options is included	below.

       -      Print usage message

       -b     File is Binary

       -c     File is Compressed

       -i filename
	      Single Input file	(standard input	by default) when not using -p

       -l     Log processing (list files processed when	using -p)

       -o filename
	      Single Output file (standard output by default) when  not	 using
	      -p

       -p path
	      Path to Files (if	processing an entire directory)

       -r path
	      Path for Results when using -p; defaults to the input directory

       -t N   Limit	  to	   the	    given      Taxon	  ID	  (per
	      http://www.ncbi.nlm.nih.gov/Taxonomy/)

       -x     Extract .ags to text .agc	(format	previously distributed)

       -y     Combine .agc to text .ags	(for testing)

       -z     Combine .agc to binary .ags, then	gzip

AUTHOR
       The National Center for Biotechnology Information.

SEE ALSO
       asn2all(1), asn2asn(1), asn2xml(1), asndhuff(1),	gene2xml.txt,
       ncbixml.txt

NCBI				  2005-05-16			   GENE2XML(1)

NAME | SYNOPSIS | DESCRIPTION | OPTIONS | AUTHOR | SEE ALSO

Want to link to this manual page? Use this URL:
<https://www.freebsd.org/cgi/man.cgi?query=gene2xml&sektion=1&manpath=FreeBSD+13.0-RELEASE+and+Ports>

home | help