extract.bin.level.results.across.taxa: Calculate summary statistics for bins for a set of taxa of...
In rbhwilliams/orf.lcam: Processing taxonomic and functional data from lcamapper
Description
Usage
Arguments
Value
Description
Calculate per-taxon summary results for a set of bins
Usage
1
extract.bin.level.results.across.taxa(orfAnnoList,binMembershipList)
Arguments
orfAnnoList
is a list output from process.ORF.annotations
binMembershipList
is a (bin-named) list, whose elements contain cognate contig ids
Value
A list whose element is a data.frame containing the following columns
taxonOfInterest
the current taxon of interest
bin.id
the bin identifier
bin.size
the number of contigs in the bin
num.anno.contigs
the number of contigs annotated to this taxon
min.annoStat
the minimum of annoStat observed in this bin
median.annoStat
the median of annoStat observed in this bin
mean.annoStat
the mean of annoStat observed in this bin
max.annoStat
the maximumof annoStat observed in this bin
rbhwilliams/orf.lcam documentation built on May 27, 2019, 3 a.m.
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Description Usage Arguments Value
Description
Calculate per-taxon summary results for a set of bins
Usage
1 | extract.bin.level.results.across.taxa(orfAnnoList,binMembershipList)
|
Arguments
orfAnnoList |
is a list output from |
binMembershipList |
is a (bin-named) list, whose elements contain cognate contig ids |
Value
A list whose element is a data.frame containing the following columns
taxonOfInterest |
the current taxon of interest |
bin.id |
the bin identifier |
bin.size |
the number of contigs in the bin |
num.anno.contigs |
the number of contigs annotated to this taxon |
min.annoStat |
the minimum of annoStat observed in this bin |
median.annoStat |
the median of annoStat observed in this bin |
mean.annoStat |
the mean of annoStat observed in this bin |
max.annoStat |
the maximumof annoStat observed in this bin |
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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