View source: R/importTaxpasta.R
importTaxpasta | R Documentation |
TreeSummarizedExperiment
Import taxpasta-specific BIOM results to
TreeSummarizedExperiment
importTaxpasta(file, add.tree = TRUE, ...)
file |
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add.tree |
|
... |
additional arguments
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importTaxpasta
imports data that is returned from Taxonomic Profile
Aggregation and Standardization (taxpasta) pipeline. See more information on
taxpasta from
taxpasta documentation.
A TreeSummarizedExperiment
object.
importBIOM
convertFromBIOM
## Not run:
# File path to BIOM file
file_path <- system.file("extdata", "complete.biom", package = "mia")
# Import BIOM as TreeSE, and set ranks.
tse <- importTaxpasta(file_path, set.ranks = TRUE)
# Import BIOM as TreeSE without adding hierarchy tree
tse <- importTaxpasta(file_path, add.tree = FALSE)
## End(Not run)
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