Description Usage Arguments Details Author(s)
This functions takes metadata table and original sequences. It creates list of these objects and calculates total number of sequences in each sample.
1 |
metadata |
Dataframe with metadata. Column 'ID' must contain sample IDs. |
sequence_totals |
Data.frame containing two columns: sample IDs and number of sequences per ID. Or path to FASTA file containing the same sequences used in AODP matching as 'Target'. |
aodp_match |
Path to AODP match file or output of readAODPmatch() function. |
value |
Cutoff value (numeric) for AODP match persentage identity. Default 99 |
species_number |
Cutoff Species number (numeric) for AODP match. This defines maximum number of Sprcies (column) assined to one sequence (column: seq_ID). |
metaData() function creates a combined list with four dataframes: Metadata - table with meta data information; Sample_totals - IDs total sequence count table; AODP_match - AODP match table (if specified).
Anatoly Belov
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