Description Usage Arguments Details Value Author(s) References See Also Examples
chooseSigma
computes the average intra-donor pool variance for
different values of sigma. It helps choosing a sigma that makes a good
trade-off between homogeneity within the pool of donors and variety (large
enough number of donors in every pool).
1 | chooseSigma(X, Y, sigma_list, seed = NULL)
|
X |
n x p numeric matrix containing RNA-seq expression with missing rows (numeric matrix or data frame) |
Y |
auxiliary dataset (n' x q numeric matrix or data frame) |
sigma_list |
a sequence of increasing positive values for sigma (numeric vector) |
seed |
single value, interpreted as an in integer, used to initialize the random number generation state |
The average intra-donor pool variance is described in (Imbert et al., 2018).
a data frame with the values of sigma and the corresponding intra-donor pool variances
Alyssa Imbert, alyssa.imbert@gmail.com
Nathalie Vialaneix, nathalie.vialaneix@inrae.fr
Imbert, A., Valsesia, A., Le Gall, C., Armenise, C., Lefebvre, G. Gourraud, P.A., Viguerie, N. and Villa-Vialaneix, N. (2018) Multiple hot-deck imputation for network inference from RNA sequencing data. Bioinformatics. doi: 10.1093/bioinformatics/btx819.
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