Description Usage Arguments Details Value Author(s) Examples
View source: R/pairedCompareTwoDataSets.R
This functions compares the distribution of two paired sets of RDP-based taxonomic trees using Likelihood-Ratio-Test statistics and a p-value is computed using permutation.
1 2 | pairedCompareTwoDataSets(data1, data2, numPerms = 1000, parallel = FALSE,
cores = 3, maxSteps=50, delta=10^(-6))
|
data1, data2 |
Data frames in which each column contains the rdp read counts for every taxa given in the row names. |
numPerms |
Number of permutations. In practice this should be at least 1,000. |
parallel |
When this is 'TRUE' it allows for parallel calculation of the permutations. Requires the package |
cores |
The number of parallel processes to run if parallel is 'TRUE'. |
maxSteps |
The maximum number of times to iterate though for the MLE. |
delta |
The minimum threshold of change in f to stop the search for the MLE. |
Note: Both data sets should be standardized to the same number of reads.
A p-value for the similarity of the two data sets based on the permutation test.
Patricio S. La Rosa, Elena Deych, Berkley Shands, William D. Shannon
1 2 3 4 5 6 7 8 9 |
Add the following code to your website.
For more information on customizing the embed code, read Embedding Snippets.