constrain_JAMS_SEobj_to_wanted_taxa: Constrains a functional (non-taxonomic) JAMS-style...
In johnmcculloch/JAMS_BW: Just A Microbiology System
View source: R/constrain_JAMS_SEobj_to_wanted_taxa.R
constrain_JAMS_SEobj_to_wanted_taxa R Documentation
Constrains a functional (non-taxonomic) JAMS-style SummarizedExperiment object which has feature-by-taxon stratification information (see JAMSbeta -u option) into a SummarizedExperiment object with BaseCounts and GeneCounts only pertaining to the wanted LKTs.
Description
Constrains a functional (non-taxonomic) JAMS-style SummarizedExperiment object which has feature-by-taxon stratification information (see JAMSbeta -u option) into a SummarizedExperiment object with BaseCounts and GeneCounts only pertaining to the wanted LKTs.
Usage
constrain_JAMS_SEobj_to_wanted_taxa(SEobj = NULL, wanted_LKTs = NULL)
Arguments
SEobj
a functional (non-taxonomic) JAMS-style SummarizedExperiment object which has feature-by-taxon stratification information (see JAMSbeta -u option)
wanted_LKTs
vector of LKTs to constrain the functional features of the original SEobj into
johnmcculloch/JAMS_BW documentation built on March 29, 2024, 7:56 p.m.
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View source: R/constrain_JAMS_SEobj_to_wanted_taxa.R
| constrain_JAMS_SEobj_to_wanted_taxa | R Documentation |
Constrains a functional (non-taxonomic) JAMS-style SummarizedExperiment object which has feature-by-taxon stratification information (see JAMSbeta -u option) into a SummarizedExperiment object with BaseCounts and GeneCounts only pertaining to the wanted LKTs.
Description
Constrains a functional (non-taxonomic) JAMS-style SummarizedExperiment object which has feature-by-taxon stratification information (see JAMSbeta -u option) into a SummarizedExperiment object with BaseCounts and GeneCounts only pertaining to the wanted LKTs.
Usage
constrain_JAMS_SEobj_to_wanted_taxa(SEobj = NULL, wanted_LKTs = NULL)
Arguments
SEobj |
a functional (non-taxonomic) JAMS-style SummarizedExperiment object which has feature-by-taxon stratification information (see JAMSbeta -u option) |
wanted_LKTs |
vector of LKTs to constrain the functional features of the original SEobj into |
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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