convert_anacapa_to_phyloseq: Takes an site-abundance table from Anacapa, along with a...
In gauravsk/ranacapa: Utility Functions and 'shiny' App for Simple Environmental DNA Visualizations and Analyses
Description
Usage
Arguments
Value
Author(s)
Examples
Description
Takes an site-abundance table from Anacapa, along with a qiime-style mapping file, and returns a phyloseq object
Usage
1
convert_anacapa_to_phyloseq(taxon_table, metadata_file)
Arguments
taxon_table
Taxon table in the anacapa format
metadata_file
Metadata file with rows as sites, columns as variables
Value
phyloseq class object
Author(s)
Gaurav Kandlikar
Examples
1
2
3
4
5
good_taxon_table <- data.frame(sum.taxonomy = c("a;b;c;d;f;u", "p;q;r;s;t;u"),
site_1 = c(0,1), site_2 = c(10, 20))
good_maps <- data.frame(site = c("site_1", "site_2"), season = c("wet", "dry"),
host = c("oak", "sage"))
convert_anacapa_to_phyloseq(good_taxon_table, good_maps)
gauravsk/ranacapa documentation built on June 7, 2019, 4:03 a.m.
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Description Usage Arguments Value Author(s) Examples
Description
Takes an site-abundance table from Anacapa, along with a qiime-style mapping file, and returns a phyloseq object
Usage
1 | convert_anacapa_to_phyloseq(taxon_table, metadata_file)
|
Arguments
taxon_table |
Taxon table in the anacapa format |
metadata_file |
Metadata file with rows as sites, columns as variables |
Value
phyloseq class object
Author(s)
Gaurav Kandlikar
Examples
1 2 3 4 5 | good_taxon_table <- data.frame(sum.taxonomy = c("a;b;c;d;f;u", "p;q;r;s;t;u"),
site_1 = c(0,1), site_2 = c(10, 20))
good_maps <- data.frame(site = c("site_1", "site_2"), season = c("wet", "dry"),
host = c("oak", "sage"))
convert_anacapa_to_phyloseq(good_taxon_table, good_maps)
|
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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