Rechercher une page de manuel
cleanasn
Langue: en
Version: 337583 (ubuntu - 24/10/10)
Section: 1 (Commandes utilisateur)
NAME
cleanasn - clean up irregularities in NCBI ASN.1 objectsSYNOPSIS
cleanasn [-] [-D str] [-F str] [-K str] [-L filename] [-M filename] [-N str] [-P] [-Q str] [-R] [-T] [-U str] [-X str] [-a str] [-b] [-c] [-f str] [-i filename] [-m str] [-o filename] [-p path] [-q path] [-r path] [-x ext]DESCRIPTION
cleanasn is a utility program to clean up irregularities in NCBI ASN.1 objects.OPTIONS
A summary of options is included below.- -
- Print usage message
- -D str
- Clean up descriptors, per the flags in str:
-
- t
- Remove Title
-
- -F str
- Clean up features, per the flags in str:
-
- u
- Remove User-objects
- d
- Remove db_xrefs
- r
- Remove redundant gene xrefs
-
- -K str
- Perform a general cleanup, per the flags in str:
-
- b
- BasicSeqEntryCleanup
- p
- C++ BasicCleanup (via an external utility)
- s
- SeriousSeqEntryCleanup
- g
- GpipeSeqEntryCleanup
- n
- Normalize Descriptor Order
- u
- Remove NcbiCleanup User Objects
-
- -L filename
- Log file
- -M filename
- Macro file
- -N str
- Clean up links, per the flags in str:
-
- o
- LinkCDSmRNAbyOverlap
- p
- LinkCDSmRNAbyProduct
- r
- ReassignFeatureIDs
- c
- ClearFeatureIDs
-
- -P
- Publication Lookup
- -Q str
- Report:
-
- r
- ASN.1 BSEC/SSEC Report
- g
- GenBank SSEC Diff
- m
- Modernization
-
- -R
- Remote fetching from ID (NCBI sequence databases)
- -T
- Taxonomy Lookup
- -U str
- Modernize, per the flags in str:
-
- g
- Genes
- r
- RNA
- p
- PCR Primers
-
- -X str
- Miscellaneous options, per str:
-
- d
- Automatic definition line
-
- -a str
- ASN.1 type
-
- a
- Any (default)
- e
- Seq-entry
- b
- Bioseq
- s
- Bioseq-set
- m
- Seq-submit
- t
- Batch Processing [String]
-
- -b
- Input ASN.1 is Binary
- -c
- Input ASN.1 is Compressed
- -f str
- Substring filter
- -i filename
- Single input file (defaults to stdin)
- -m str
- Flatfile mode:
-
- r
- Release
- e
- Entrez
- s
- Sequin
- d
- Dump
-
- -o filename
- Single output file (defaults to stdout)
- -p path
- Process all matching files in path
- -q path
- Ffdiff executable (default is /netopt/genbank/subtool/bin/ffdiff)
- -r path
- Path for results
- -x ext
- File selection suffix for use with -p (defaults to .ent)
AUTHOR
The National Center for Biotechnology Information.SEE ALSO
asnval (1), sequin (1).Contenus ©2006-2024 Benjamin Poulain
Design ©2006-2024 Maxime Vantorre