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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 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/Taxon- omy/) -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
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