infer_from_combined — infer_from

infer_from_combined infers the results (presence/absense of genes & CC) from the combined result

infer_from_combined(combined_result, search_table, genome_size, ...)

Arguments

combined_result: the combined result from combine_fastq_search_result or equivalent, with a list containing: - result: a dataframe containing the following columns: `sequence`, `search_id`, `reads`, `raw_match`, `mean_qualities`, `indexes`, `id`, `type`, `strand`, `result`, `extra`, `match_ref_seq`, `n_reads` - read_length: `reads_id`, `reads_length`
search_table: a dataframe with the following columns: - "id","type","sequence","strand","result","extra","match_ref_seq"
genome_size: estimated genome size for coverage calculation
...: additional arguments to pass to the process methods

a dataframe containing the following columns: - type, rank, result, reads_count, proportion_matched, pass_filter