findRefinx: findRefinx
In TOAST: Tools for the analysis of heterogeneous tissues

Find index for marker genes with largest coefficient of variation based on raw data.

1	findRefinx(rawdata, nmarker=1000, sortBy = "var")

`rawdata`	A data matrix with rows representing features and columns represeting samples; or a SummarizedExperiment object.
`nmarker`	Desired number of markers after selection. Default is 1000.
`sortBy`	Desired method to select features. "var" represents selecting by largest variance. "cv" represents selecting by largest coefficients of variation. Default is "var".

A vector of index for the selected markers.

Ziyi Li <ziyi.li@emory.edu>

Ziyi Li, Zhijin Wu, Peng Jin, Hao Wu. "Dissecting differential signals in high-throughput data from complex tissues."

1
2
3

Y_raw <- matrix(runif(5000*20, 0, 1), 5000, 20)
idx <- findRefinx(Y_raw, nmarker=500)
idx2 <- findRefinx(Y_raw, nmarker=500, sortBy = "cv")

TOAST documentation built on Nov. 8, 2020, 5:55 p.m.

TOAST index

Note that we can't provide technical support on individual packages. You should contact the package authors for that.

Description