calculate_DTU | R Documentation |
Set up and execute the tests.
calculate_DTU( counts_A, counts_B, tx_filter, test_transc, test_genes, full, count_thresh, p_thresh, dprop_thresh, correction, threads = 1, use_sums = FALSE )
counts_A |
A data.table of counts for condition A. x: sample, y: transcript. |
counts_B |
A data.table of counts for condition B. x: sample, y: transcript. |
tx_filter |
A data.table with target_id and parent_id. Pre-processed with |
test_transc |
Whether to do transcript-level test. |
test_genes |
Whether to do gene-level test. |
full |
Either "full" (for complete output structure) or "short" (for bootstrapping). |
count_thresh |
Minimum average count across replicates. |
p_thresh |
The p-value threshold. |
dprop_thresh |
Minimum difference in proportions. |
correction |
Multiple testing correction type. |
threads |
Number of threads (POSIX systems only). |
use_sums |
Use sums instead of means. (sums is the behaviour of RATs up to 0.6.5 inclusive, more sensitivie but more prone to false positives) |
list
Add the following code to your website.
For more information on customizing the embed code, read Embedding Snippets.