create_phylo: Summarize ASV table, taxonomy and phenodata in a phyloseq...
In peterolah001/BiMiCo: Biomap Microbiome Core methods
create_phylo R Documentation
Summarize ASV table, taxonomy and phenodata in a phyloseq object
Description
Takes as input an ASV table and taxonomy table created in the BiMiCo pipeline, with optional sample phenotypes imported e.g. from a csv table, and creates a phyloseq object.
Usage
create_phylo(asvtb, taxtb, phenodata)
Arguments
phenodata
(Required) sample phenotype matrix, if available; sample names must match with ASV table sample names.
asvtab
(Required) ASV table generated in BimiCo (ASVs in rows)
taxtab
(Required) Taxonomy table generated in BiMiCo
Examples
create_phylo()
peterolah001/BiMiCo documentation built on April 24, 2023, 3:35 a.m.
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| create_phylo | R Documentation |
Summarize ASV table, taxonomy and phenodata in a phyloseq object
Description
Takes as input an ASV table and taxonomy table created in the BiMiCo pipeline, with optional sample phenotypes imported e.g. from a csv table, and creates a phyloseq object.
Usage
create_phylo(asvtb, taxtb, phenodata)
Arguments
phenodata |
(Required) sample phenotype matrix, if available; sample names must match with ASV table sample names. |
asvtab |
(Required) ASV table generated in BimiCo (ASVs in rows) |
taxtab |
(Required) Taxonomy table generated in BiMiCo |
Examples
create_phylo()
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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