twilight.combi(xin, pin, bin)
TRUE
if samples are paired, FALSE
if not. TRUE
if permutations should be balanced, FALSE
if not. NULL
is returned.
twilight.combi
computes all permutations with 2 or 3 samples unchanged. In the paired case, the output matrix contains only one half of all permutations. The second half is simply 1-output
which leads to the same absolute test statistics in a paired test.
Scheid S and Spang R (2005): twilight; a Bioconductor package for estimating the local false discovery rate, Bioinformatics 21(12), 2921--2922.
Scheid S and Spang R (2006): Permutation filtering: A novel concept for significance analysis of large-scale genomic data, in: Apostolico A, Guerra C, Istrail S, Pevzner P, and Waterman M (Eds.): Research in Computational Molecular Biology: 10th Annual International Conference, Proceedings of RECOMB 2006, Venice, Italy, April 2-5, 2006. Lecture Notes in Computer Science vol. 3909, Springer, Heidelberg, pp. 338-347.
twilight.permute.pair
, twilight.permute.unpair
x <- c(rep(0,4),rep(1,3))
y <- twilight.combi(x,pin=FALSE,bin=FALSE)
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