wigeon
reimplementation of the Pintail 16S DNA anomaly detection utility
Command lineScience
Not tested on a device yet. What that means
Commands in the package
wigeoncm_to_wigeon
About wigeon
From Debian's package description
WigeoN examines the sequence conservation between a query and a trusted reference sequence, both in NAST alignment format. Based on the sequence identity between the query and the reference sequence, there is an expected amount of variation among the alignment. If the observed variation is greater than the 95% quantile of the distribution of variation observed between non-anomalous sequences, then it is flagged as an anomaly.
WigeoN is a flexible command-line based reimplementation of the Pintail algorithm Appl Environ Microbiol. 2005 Dec;7112:7724-36.
WigeoN is useful for flagging chimeras and anomalies only in near full-length 16S rRNA sequences. WigeoN lacks sensitivity with sequences less than 1000 bp.
To run WigeoN, you need NAST-formatted sequences generated by the nast-ier utility.
WigeoN is part of the microbiomeutil suite.
From Debian's description of the wigeon package, under that package's license.
Dependencies
Depends on
microbiomeutil-data
Recommends
Related apps
- microbiomeutilMicrobiome Analysis UtilitiesCommand line
- nast-ierNAST-based DNA alignment toolCommand line
- chimeraslayerdetects likely chimeras in PCR amplified DNACommand line
- cnvkitCopy number variant detection from targeted DNA sequencingCommand line
- rtaxClassification of sequence reads of 16S ribosomal RNA geneCommand line
- kineticstoolsdetection of DNA modificationsCommand line
Sources and licenses
- Name: the Debian package name.
- Summary: Debian's short description of the wigeon package, under that package's license.
- Description: Debian's description of the wigeon package, under that package's license.
- Versions and sizes: Debian's archive for ARM64, as on packages.debian.org.
- Popularity: Debian Popularity Contest counts.
More in About the catalog.