Description Usage Arguments Value Author(s)
Implement SCDE 1.99.2. This older version of SCDE is need for computers that are compatible with an older version of flexmix (flexmix_2.3-13; for related discussions on this, see https://github.com/hms-dbmi/scde/issues/40). Currently, this function uses the SCDE method for normalizatino and does not allow using other normalization factors.
1 2 | methodWrapper.scde(counts, condition, control = list(save_modelFit = FALSE,
n.randomizations = 100, n.cores = 4, min.size.entries = ncol(counts)))
|
counts |
Gene by sample expression count matrix (G by N). |
condition |
Binary vector of length N indicating sample biological condition. |
control |
List with control arguments, including
|
List with the following objects
sig_order
Z-socres of expression difference, ordered from the most
significant to the least significant.
fit
SCDE complete output of the model fit.
Chiaowen Joyce Hsiao
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