cluster.sweep: Performs a hyperparameter sweep across lambda, nclust and...
In jeliason/spatialkmeans: Cluster Spatial Omics Data Via Spatially Regularized K-Means
Description
Usage
Arguments
Value
View source: R/cluster_sweep.R
Description
Performs a hyperparameter sweep across lambda, nclust and quantile function for a dataset
Usage
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cluster.sweep(
X,
coord,
nclust = c(3, 6, 10),
lambda = c(1),
metrics = list(colMins = matrixStats::colMins, colMeds = matrixStats::colMedians,
colMaxs = matrixStats::colMaxs),
max.iter = 100
)
Arguments
X
An n x p matrix with n cells and p features
coord
An n x 2 matrix with X and Y coordinates for each cell
nclust
A vector of numbers of clusters to sweep
lambda
A vector of lambda values to sweep
metrics
A named list of quantile functions to sweep
max.iter
Maximum iterations per sweep
Value
A 'long' dataframe with cluster membership for each cell along with sweep information
jeliason/spatialkmeans documentation built on Dec. 20, 2021, 11 p.m.
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Description Usage Arguments Value
View source: R/cluster_sweep.R
Description
Performs a hyperparameter sweep across lambda, nclust and quantile function for a dataset
Usage
1 2 3 4 5 6 7 8 9 | cluster.sweep(
X,
coord,
nclust = c(3, 6, 10),
lambda = c(1),
metrics = list(colMins = matrixStats::colMins, colMeds = matrixStats::colMedians,
colMaxs = matrixStats::colMaxs),
max.iter = 100
)
|
Arguments
X |
An n x p matrix with n cells and p features |
coord |
An n x 2 matrix with X and Y coordinates for each cell |
nclust |
A vector of numbers of clusters to sweep |
lambda |
A vector of lambda values to sweep |
metrics |
A named list of quantile functions to sweep |
max.iter |
Maximum iterations per sweep |
Value
A 'long' dataframe with cluster membership for each cell along with sweep information
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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