import_utax_file: Import utax Taxonomy File
In jfq3/RDPutils: R Utilities for Processing RDPTool Output
Description
Usage
Arguments
Details
Value
Author(s)
Examples
Description
Converts the tab-delimited output of USEARCH's utax command to a phyloseq tax_table object. The confidence level for taxonomic assignment is chosen on import.
Usage
1
import_utax_file(in_file, confidence)
Arguments
in_file
The utaxout result from USEARCH's utax command.
confidence
The confidence level to use in assigning taxonomic categories.
Details
The default confidence level is 0.8.
Value
A phyloseq tax_table.
Author(s)
John Quensen
Examples
1
2
##---- Not run. ----
##-- tax.table <- import_utax_file(in_file="utax_result.txt", confidence = 0.8)
jfq3/RDPutils documentation built on Nov. 8, 2019, 1:05 p.m.
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Description Usage Arguments Details Value Author(s) Examples
Description
Converts the tab-delimited output of USEARCH's utax command to a phyloseq tax_table object. The confidence level for taxonomic assignment is chosen on import.
Usage
1 | import_utax_file(in_file, confidence)
|
Arguments
in_file |
The utaxout result from USEARCH's utax command. |
confidence |
The confidence level to use in assigning taxonomic categories. |
Details
The default confidence level is 0.8.
Value
A phyloseq tax_table.
Author(s)
John Quensen
Examples
1 2 | ##---- Not run. ----
##-- tax.table <- import_utax_file(in_file="utax_result.txt", confidence = 0.8)
|
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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