MAUPSr: rMAUPS pipeline - QC, differential analysis, integrative...
In WubingZhang/rMAUPS: Model-Based Analysis of Ubiquitin-Proteome System Based Protein Degradation.
MAUPSr R Documentation
rMAUPS pipeline - QC, differential analysis, integrative analysis.
Description
rMAUPS pipeline - QC, differential analysis, integrative analysis.
Usage
MAUPSr(metadata, outdir = "./", qc = TRUE, type = "msms", method = "limma")
Arguments
metadata
File path or data frame of the meta data, including columns of
Experiment, Sample, Condition, and multiple comparisons.
outdir
Output directory.
qc
Boolean, specifying whether perform the quanlity control.
type
Could be "msms", "RNASeq", or "Arrary".
method
A character, specifying the method for differential analysis.
Optional methods include DESeq2 (RNASeq), GFOLD (RNASeq), limma, glm.pois, glm.qlll, and glm.nb.
Value
No return value. Output multiple files into local folder.
Author(s)
Wubing Zhang
WubingZhang/rMAUPS documentation built on March 21, 2022, 8:48 p.m.
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| MAUPSr | R Documentation |
rMAUPS pipeline - QC, differential analysis, integrative analysis.
Description
rMAUPS pipeline - QC, differential analysis, integrative analysis.
Usage
MAUPSr(metadata, outdir = "./", qc = TRUE, type = "msms", method = "limma")
Arguments
metadata |
File path or data frame of the meta data, including columns of Experiment, Sample, Condition, and multiple comparisons. |
outdir |
Output directory. |
qc |
Boolean, specifying whether perform the quanlity control. |
type |
Could be "msms", "RNASeq", or "Arrary". |
method |
A character, specifying the method for differential analysis. Optional methods include DESeq2 (RNASeq), GFOLD (RNASeq), limma, glm.pois, glm.qlll, and glm.nb. |
Value
No return value. Output multiple files into local folder.
Author(s)
Wubing Zhang
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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