mds.and.clus-methods: description of function mds.and.clus

In stela2502/Rscexv: The backend for the SCExV (single cell expression view) server.

description of function mds.and.clus

Description

this function calculates the MDS and creates the grouping if necessary.

Usage

mds.and.clus(
  dataObj,
  ...,
  clusterby = "raw",
  mds.type = "PCA",
  groups.n,
  LLEK = 2,
  cmethod = "ward.D",
  ctype = "hierarchical clust",
  onwhat = "Expression",
  useGrouping = NULL
)

Arguments

dataObj	TEXT MISSING
clusterby	cluster by raw or MDS default="raw"
mds.type	which MDS function to use default="PCA"
groups.n	the numer of groups to create
LLEK	the LLEK option for the LLE and ISOMAP mds functions default=2
cmethod	the hyclust method to use default='ward.D'
ctype	the clustering method ('hierarchical clust' or kmeans) default='hierarchical clust'
onwhat	cluster on FACS or Expression data default="Expression"
useGrouping	do not calculate a new grouping - use this column in the samples table (default=NULL)

stela2502/Rscexv documentation built on July 6, 2022, 9:02 p.m.