nmfGetBest: Finds best nmf run
In iaaka/visutils: QC, analyse and visualize visium
nmfGetBest R Documentation
Finds best nmf run
Description
by 1) its agreement (mean Silhouette) with consensus matrix calculated based on all runs 2) deviance
Usage
nmfGetBest(nmfs, normF)
Arguments
nmfs
list of nmf results
normF
normalization function (output of getNMFNormFs)
Details
the one that agree best with coincedence matrix
Value
list containing:
best nmf
normalized basis and coedicients (these are in addition per celltype sum-normalized)
celltype clustering
consensus matrix
Silhouette statistics
intex of best run
iaaka/visutils documentation built on June 13, 2025, 6:06 p.m.
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| nmfGetBest | R Documentation |
Finds best nmf run
Description
by 1) its agreement (mean Silhouette) with consensus matrix calculated based on all runs 2) deviance
Usage
nmfGetBest(nmfs, normF)
Arguments
nmfs |
list of nmf results |
normF |
normalization function (output of getNMFNormFs) |
Details
the one that agree best with coincedence matrix
Value
list containing: best nmf normalized basis and coedicients (these are in addition per celltype sum-normalized) celltype clustering consensus matrix Silhouette statistics intex of best run
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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