Description Usage Arguments Value
Filters out low relative abundance taxa from normalized metannotate data based on a desired threshold
1 | filter_by_abundance(metannotate_data, top_x, percent_mode = "within_sample")
|
metannotate_data |
Tibble of normalized metannotate data - see |
top_x |
Numeric vector (length 1) giving the subsetting amount you desire. If top_x >=1, the script will return the "top_x most abundant taxa" for each Dataset/HMM.Family If top_x <1, the script will return "all taxa of (top_x * 100%) abundance or greater for each Dataset/HMM.Family - but see below. |
percent_mode |
If top_x <1, there are two different methods for keeping the most abundant organisms:
|
List of two:
Tibble of metannotate data, with 'percent_abundance' and 'percent_abundance_sd'
Tibble summarizing total normalized counts for genes
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