Description Usage Arguments Details Value Examples
See vignette for more details.
1 2 | MAC_perm(data, MACs_observ, num_perms = 100, max_lag_prop = 1/3,
FDR_cutoffs = 101, perm_file_name = F)
|
data |
A data matrix for which the rows are genes and the columns are experiments, sorted by their pseudotime. |
MACs_observ |
The resulting matrix of MACs from running MAC_counter on the dataset |
num_perms |
The number of permutations to be performed. Default is 100. |
max_lag_prop |
The largest proportion of your experiments that you want the size of the lag to be. Recommended not to go beyond 1/3. Default value is 1/3. |
FDR_cutoffs |
The number of cutoffs between 0 and 1 to use for FDR analysis. Default value is 101, resulting in 0,0.01,0.02,...,0.98,0.99,1. |
perm_file_name |
The name to be used for resulting .csv file. I.e., using perm_file_name="mine" would create the file "perm_mine.csv" |
See vignette for more details.
Returns a dataset with four columns: cors are the correlation cutoffs, MACs_observed are the number of observed correlations at that cutoff, MACs_ave_perm are the average number observed in the permuted datasets at that cutoff, and fdr is the false discovery rate (FDR) observed at that cutoff.
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