MicroDegs: Helper Function For DEG Analysis of microArray Data (for all...
In lusystemsbio/NetAct: NetAct -- a computational platform to construct core transcription factor regulatory networks using gene activity
MicroDegs R Documentation
Helper Function For DEG Analysis of microArray Data (for all cases, including single and multiple comparisons)
Description
Helper Function For DEG Analysis of microArray Data (for all cases, including single and multiple comparisons)
Usage
MicroDegs(eset, compList, qval = 0.05)
Arguments
eset
Processed gene expression data in the ExpressionSet format
batch & experimental conditions are provided in pData.
compList
a vector of multiple comparisons in the format of contrasts in limma (e.g. c("A-B", "A-C", "B-C"))
qval
q-value cutoff for DEG analysis (default: 0.05)
Value
DEresult: a list of DEG results, including those for each single comparison and those for the overall comparison.
Each DEG result is in the format of A list containing:
table: table of DEG results.
rank_vector: a vector of t-statistics for every gene.
degs: a vector of gene symbols for DEGs.
lusystemsbio/NetAct documentation built on Sept. 7, 2024, 8:34 p.m.
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| MicroDegs | R Documentation |
Helper Function For DEG Analysis of microArray Data (for all cases, including single and multiple comparisons)
Description
Helper Function For DEG Analysis of microArray Data (for all cases, including single and multiple comparisons)
Usage
MicroDegs(eset, compList, qval = 0.05)
Arguments
eset |
Processed gene expression data in the ExpressionSet format batch & experimental conditions are provided in pData. |
compList |
a vector of multiple comparisons in the format of contrasts in limma (e.g. c("A-B", "A-C", "B-C")) |
qval |
q-value cutoff for DEG analysis (default: 0.05) |
Value
DEresult: a list of DEG results, including those for each single comparison and those for the overall comparison. Each DEG result is in the format of A list containing: table: table of DEG results. rank_vector: a vector of t-statistics for every gene. degs: a vector of gene symbols for DEGs.
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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