purIST: PurIST
In fossbert/binilib: Carlo's little helper
Description
Usage
Arguments
Details
Value
Description
This function implements single-sample classification for PDAC specimen based on their raw gene expression profiles.
Idealy you would normalize for gene length although it does work with microarray intensities as well, so should be fine
with normalized counts just accounting for different library sizes.
Usage
1
Arguments
emat
expression matrix with row (=gene) and column (=sample) names. Genes must be supplied as HUGO gene symbols
raw
logical indicating on whether to return a matrix with raw expression values for all pairs for inspection (default = FALSE)
Details
PMID: 31754050
Probability key:
< 0.1: strongly favors classical
0.1 - 0.4: likely classical
0.4 - 0.5: lean classical
0.5 - 0.6: lean basal-like
0.6 - 0.9: likely basal-like
>0.9: strongly favors basal-like
Value
a named numeric vector of probabilities reflecting class membership or a matrix of pasted expression values
fossbert/binilib documentation built on April 23, 2021, 10:31 p.m.
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Description Usage Arguments Details Value
Description
This function implements single-sample classification for PDAC specimen based on their raw gene expression profiles. Idealy you would normalize for gene length although it does work with microarray intensities as well, so should be fine with normalized counts just accounting for different library sizes.
Usage
1 |
Arguments
emat |
expression matrix with row (=gene) and column (=sample) names. Genes must be supplied as HUGO gene symbols |
raw |
logical indicating on whether to return a matrix with raw expression values for all pairs for inspection (default = FALSE) |
Details
PMID: 31754050
Probability key: < 0.1: strongly favors classical 0.1 - 0.4: likely classical 0.4 - 0.5: lean classical 0.5 - 0.6: lean basal-like 0.6 - 0.9: likely basal-like >0.9: strongly favors basal-like
Value
a named numeric vector of probabilities reflecting class membership or a matrix of pasted expression values
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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