Description Usage Arguments Value Author(s) References Examples
Called from sim_driver_script.
1 | do.permutations(het, cell.props, groups, nperms = 100, medCntr, stdz, nonNeg)
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het |
Should be samples by genomic site (rows by columns). The samples by genomic measures heterogeneous observations matrix. |
cell.props |
Should be samples by cell types (rows by columns). The relative cell proportions per sample. |
groups |
A vector of 1's and 2's indicating group membership per sample. Should align with samples in het.sub and cell.props. |
nperms |
Integer value indicating number of group label permutations to perform when simulating each site's parameters. |
medCntr |
Boolean indicating whether to median center differential expression estimates. |
stdz |
Boolean indicating whether to 'standardize' differential expression estimates. |
nonNeg |
Boolean indicating whether to force cell type-specific expression estiamtes to be non-negative. |
An 3-dimensional array of cell type-specific differential expression estimates for each permutation by each cell type by each genomic site.
Edmund R Glass, Edmund.Glass@gmail.com
https://github.com/ERGlass/ERGmisc
1 | do.permutations( het.obs, cell.props, groups, n.perms=1000, medCntr, stdz, nonNeg )
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