View source: R/READ-read_ko_shiny.R
read_ko_shiny | R Documentation |
read_ko_shiny calculates the abundance of each KO within the bins based on the KofamScan or KofamKoala output.
read_ko_shiny(data_kofam=NULL, data_kaas=NULL, data_interpro=NULL)
data_kofam |
a file output of KofamScan/KofamKoala. They should have the extension .txt and all files in the path are the ones that need to be read. Output data should have 5 columns with the bin names followed by the scaffold name divided by a '-' or '_': bin_scaffoldXX. |
data_kaas |
a data frame with 2 columns. Contigs are expected to indicate in their names the bin name followed by the scaffold name divided by a '-' or '_': bin_scaffoldXX. |
data_interpro |
a data frame output of read_interpro. This argument is used within mapping_KO. |
This function is part of a package used for the analysis of bins metabolism.
## Not run:
read_ko_shiny("Kofam_output")
## End(Not run)
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