readPermResults: readPermResults
In plger/iPSCpoweR: iPSCpoweR: transcriptomics-based evaluation of experimental designs for iPSC disease modeling
Description
Usage
Arguments
Value
View source: R/DEA.permutations.R
Description
readPermResults
Usage
1
readPermResults(resFiles, threshold = 0.05)
Arguments
resFiles
character vector indicating the names of the results files (.RData files save by the DEA permutation functions)
threshold
the FDR threshold below which a test is considered positive (default 0.05).
Value
A list with the following slots:
'nbComps: number of comparisons.
'FP: number of false (or spurious) positives for each comparison.
'TP: (only if the permutations were generated with addDE=TRUE) The number of true positives for each comparison.
'DEGs: (only if the permutations were generated with addDE=TRUE) a data.frame containing, for each gene, the number of times it was found with a FDR below the threshold, the absLog2FC introduced in the input, and the mean fragment count.
plger/iPSCpoweR documentation built on Feb. 2, 2022, 1:37 a.m.
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Description Usage Arguments Value
View source: R/DEA.permutations.R
Description
readPermResults
Usage
1 | readPermResults(resFiles, threshold = 0.05)
|
Arguments
resFiles |
character vector indicating the names of the results files (.RData files save by the DEA permutation functions) |
threshold |
the FDR threshold below which a test is considered positive (default 0.05). |
Value
A list with the following slots: 'nbComps: number of comparisons. 'FP: number of false (or spurious) positives for each comparison. 'TP: (only if the permutations were generated with addDE=TRUE) The number of true positives for each comparison. 'DEGs: (only if the permutations were generated with addDE=TRUE) a data.frame containing, for each gene, the number of times it was found with a FDR below the threshold, the absLog2FC introduced in the input, and the mean fragment count.
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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