Fits grade of membership models (GoM, also known as admixture models) to cluster RNA-seq gene expression count data, identifies characteristic genes driving cluster memberships, and provides a visual summary of the cluster memberships.
|Author||Kushal Dey [aut, cre], Joyce Hsiao [aut], Matthew Stephens [aut]|
|Date of publication||None|
|Maintainer||Kushal Dey <firstname.lastname@example.org>|
|License||GPL (>= 2)|
AbundanceGoM: GoM model fit for abundance data
BatchCorrectedCounts: Obtain Batch effect Corrected counts
cg_topics: Compute the center of gravity of the clusters
compare_omega: Re-ordering cluster membership proportion matrices and...
ex.counts: counts data for GTEx V6 Brain data for 200 genes
ExtractTopFeatures: Extracting top driving genes driving GoM clusters
FitGoM: Grade of Membership (GoM) model fit !
GTExV6Brain.FitGoM: GoM model fit for GTEx V6 Brain bulk-RNA data
handleNA: Deal with NAs in the dataset!
MouseDeng2014.FitGoM: GoM model fit for Deng et al 2014 single cell RNA-seq data on...
MouseJaitinSpleen.FitGoM: GoM model fit for Jaitin et al 2014 single cell RNA-seq data...
nullmodel_GoM: Null models for Grade of Membership (GoM) cluster validation
RemoveSparseFeatures: Removes features with a lot of 0 counts
StructureGGplot: Struture plot with ggplot2 package
Structure_omega: Structure Plot of GoM model proportions (Base plot version)!