nps2gps(1) [debian man page]
NPS2GPS(1) General Commands Manual NPS2GPS(1) NAME
nps2gps - convert nucleotide-protein sets to ASN.1 genomic product sets SYNOPSIS
nps2gps [-] [-D] [-F] [-G str] [-L] [-N] [-P] [-Q] [-R] [-T] [-U] [-f str] [-i filename] [-o filename] [-p path] [-r path] [-x str] DESCRIPTION
nps2gps converts NCBI Bioseq-sets from simple nucleotide-protein sets to full genomic product sets complete with mRNA transcripts, which it outputs as text ASN.1. OPTIONS
A summary of options is included below. - Print usage message -D RefSeq mRNA Titles -F Map by Feature ID -G str General ID database name -L Lock components in advance -N Promote Non-coding RNAs -P mRNA ID from Protein -Q Special mRNA titles -R Enable Remote fetching from ID -T Map by Transcript ID -U Remove Unnecessary gene cross-references -f str Substring filter -i filename Single input file (default = stdin) -o filename Single output file (default = stdout) -p path Path to files for batch conversion -r path Path for results of batch conversion -x str File selection suffix for batch conversion (default = .ent) AUTHOR
The National Center for Biotechnology Information. SEE ALSO
asn2asn(1), asn2ff(1), asn2gb(1), asn2xml(1), asndhuff(1). NCBI Tools User's Manual 2012-06-24 NPS2GPS(1)
Check Out this Related Man Page
ASNVAL(1) NCBI Tools User's Manual ASNVAL(1) NAME
asnval - validate ASN.1 biological sequence records SYNOPSIS
asnval [-] [-A] [-B] [-C N] [-D] [-E str] [-F] [-G] [-J] [-K] [-L filename] [-M] [-N flags] [-P N] [-Q N] [-R N] [-S N] [-T] [-U] [-X] [-Y] [-Z] [-a type] [-b] [-c] [-d path] [-e] [-f str] [-i filename] [-k] [-l] [-o filename] [-p path] [-q] [-r] [-u] [-v N] [-x str] DESCRIPTION
asnval is a command-line tool to validate ASN.1-format biological sequence records. OPTIONS
A summary of options is included below. - Print usage message -A Validate Alignments -B Validate Barcodes -C N Max count -D Disable message suppression -E str Only Error Code to Show -F Test network access -G GI lookup from accession -J Require ISO-JTA? -K Summary to error file -L filename Log File -M Match locus_tag against General ID -N flags Latitude-longitude / country flags 0 none 1 test state/province 2 ignore water exception 3 both of the above -P N Highest severity for error to show: 0 none 1 informational 2 warning 3 error (default for -Q) 4 grounds for rejection (default for -P, -R) -Q N Lowest severity for error to show, per P -R N Severity for error in return code, per P -S N Skip count -T Use Threads -U Genome center submission -X Exon splice check -Y Check against old IDs -Z Remote CDS product fetch -a type Input ASN.1 type: a Automatic (default) c Catenated z Any e seq-Entry b Bioseq s bioseq-Set m seq-subMit t baTch bioseq-set u batch seq-sUbmit -b Batch file is Binary -c Batch file is Compressed -d path Path to Indexed Binary ASN.1 Data -e Ignore transcription/translation Exceptions -x str Substring filter -i filename Single input file (standard input by default) -k Local fetching -l Lock components in advance -o filename Single output file -p path Path to ASN.1 Files -q Taxonomy lookup -r Remote Fetching from ID -u Recurse -v N Verbosity: 1 Standard report (default) 2 Accession / severity / code (space delimited) 3 Accession / severity / code (tab delimited) 4 XML report 5 Accession / GI / severity / code (tab delimited) -x str File selection substring (.ent by default) AUTHOR
The National Center for Biotechnology Information. SEE ALSO
asndisc(1), cleanasn(1), sequin(1). NCBI
2012-06-24 ASNVAL(1)