plotMDS: plotMDS - Testing gene sepparability with multi-dimensional...
In juanbot/CoExpNets: Co-expression network management based on WGCNA + k-means
Description
plotMDS - Testing gene sepparability with multi-dimensional
scalling.
Usage
1
plotMDS(rpkms.net, path, covs, covvars, label, n.mds = -1)
Arguments
rpkms.net
A dataframe with the expression data with samples in columns.
Columns are assumed to use sample IDs as column names. These IDs should appear
as row names in the covariate file to properly index each value
path
Folder to write the pdf plot generated
covs
A data frame with all covariates for the samples. The rows must
be named with the sample IDs.
covvars
The variables from the covs parameter to use in the plot
label
A string for using at the plot, informative purposes
n.mds
Number of genes to use, randomly sampled
juanbot/CoExpNets documentation built on May 15, 2021, 12:20 p.m.
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Description
plotMDS - Testing gene sepparability with multi-dimensional scalling.
Usage
1 | plotMDS(rpkms.net, path, covs, covvars, label, n.mds = -1)
|
Arguments
rpkms.net |
A dataframe with the expression data with samples in columns. Columns are assumed to use sample IDs as column names. These IDs should appear as row names in the covariate file to properly index each value |
path |
Folder to write the pdf plot generated |
covs |
A data frame with all covariates for the samples. The rows must be named with the sample IDs. |
covvars |
The variables from the covs parameter to use in the plot |
label |
A string for using at the plot, informative purposes |
n.mds |
Number of genes to use, randomly sampled |
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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