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gene2xml
Langue: en
Version: 260695 (debian - 07/07/09)
Section: 1 (Commandes utilisateur)
NAME
gene2xml - convert NCBI Entrez Gene ASN.1 into XMLSYNOPSIS
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 significant savings of disk storage and network bandwidth. Normal processing 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), /usr/share/doc/ncbi-tools-bin/gene2xml.txt.gz, /usr/share/doc/libncbi6/ncbixml.txt.gzContenus ©2006-2024 Benjamin Poulain
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