add_scaled_counts_bulk.get_low_expressed {ppcseq} | R Documentation |
Drop lowly transcribed genes for TMM normalization
add_scaled_counts_bulk.get_low_expressed( .data, .sample = sample, .transcript = transcript, .abundance = count, factor_of_interest = NULL, minimum_counts = 10, minimum_proportion = 0.7 )
.data |
A tibble |
.sample |
The name of the sample column |
.transcript |
The name of the transcript/gene column |
.abundance |
The name of the transcript/gene abundance column |
factor_of_interest |
The name of the column of the factor of interest |
minimum_counts |
A positive integer. Minimum counts required for at least some samples. |
minimum_proportion |
A real positive number between 0 and 1. It is the threshold of proportion of samples for each transcripts/genes that have to be characterised by a cmp bigger than the threshold to be included for scaling procedure. |
A tibble filtered