| data_fungi_mini {MiscMetabar} | R Documentation |
Fungal OTU in phyloseq format
Description
It is a subset of the data_fungi dataset including only Basidiomycota with more than 5000 sequences.
Usage
data(data_fungi_mini)
data(data_fungi_mini)
Format
A physeq object containing 45 taxa with references sequences described by 14 taxonomic ranks and 137 samples described by 7 sample variables:
-
X: the name of the fastq-file
-
Sample_names: the names of ... the samples
-
Treename: the name of an tree
-
Sample_id: identifier for each sample
-
Height: height of the sample in the tree
-
Diameter: diameter of the trunk
-
Time: time since the dead of the tree
A physeq object containing 45 taxa with references sequences described by 14 taxonomic ranks and 137 samples described by 7 sample variables:
-
X: the name of the fastq-file
-
Sample_names: the names of ... the samples
-
Treename: the name of an tree
-
Sample_id: identifier for each sample
-
Height: height of the sample in the tree
-
Diameter: diameter of the trunk
-
Time: time since the dead of the tree
Details
Obtain using data_fungi_mini <- subset_taxa(data_fungi, Phylum == "Basidiomycota")
and then data_fungi_mini <- subset_taxa_pq(data_fungi_mini, colSums(data_fungi_mini@otu_table) > 5000)