Package: preprocessCore 1.67.0
preprocessCore: A collection of pre-processing functions
A library of core preprocessing routines.
Authors:
preprocessCore_1.67.0.tar.gz
preprocessCore_1.67.0.zip(r-4.5)preprocessCore_1.67.0.zip(r-4.4)preprocessCore_1.67.0.zip(r-4.3)
preprocessCore_1.67.0.tgz(r-4.4-arm64)preprocessCore_1.67.0.tgz(r-4.4-x86_64)preprocessCore_1.67.0.tgz(r-4.3-arm64)preprocessCore_1.67.0.tgz(r-4.3-x86_64)
preprocessCore_1.67.0.tar.gz(r-4.5-noble)preprocessCore_1.67.0.tar.gz(r-4.4-noble)
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preprocessCore.pdf |preprocessCore.html✨
preprocessCore/json (API)
# Install 'preprocessCore' in R: |
install.packages('preprocessCore', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/bmbolstad/preprocesscore/issues
On BioConductor:preprocessCore-1.67.0(bioc 3.20)preprocessCore-1.66.0(bioc 3.19)
Last updated 2 months agofrom:3a8599b27b
Exports:colSummarizeAvgcolSummarizeAvgLogcolSummarizeBiweightcolSummarizeBiweightLogcolSummarizeLogAvgcolSummarizeLogMediancolSummarizeMediancolSummarizeMedianLogcolSummarizeMedianpolishcolSummarizeMedianpolishLogconvert.group.labelsnormalize.quantilesnormalize.quantiles.determine.targetnormalize.quantiles.in.blocksnormalize.quantiles.robustnormalize.quantiles.use.targetrcModelMedianPolishrcModelPLMrcModelPLMdrcModelPLMrrcModelPLMrcrcModelPLMrrrcModelWPLMrcModelWPLMrrcModelWPLMrcrcModelWPLMrrrma.background.correctsubColSummarizeAvgsubColSummarizeAvgLogsubColSummarizeBiweightsubColSummarizeBiweightLogsubColSummarizeLogAvgsubColSummarizeLogMediansubColSummarizeMediansubColSummarizeMedianLogsubColSummarizeMedianpolishsubColSummarizeMedianpolishLogsubrcModelMedianPolishsubrcModelPLM
Dependencies:
Readme and manuals
Help Manual
Help page | Topics |
---|---|
Summarize the column of matrices | colSummarizeAvg colSummarizeAvgLog colSummarizeBiweight colSummarizeBiweightLog colSummarizeLogAvg colSummarizeLogMedian colSummarizeMedian colSummarizeMedianLog colSummarizeMedianpolish colSummarizeMedianpolishLog |
Quantile Normalization | normalize.quantiles |
Quantile Normalization carried out separately within blocks of rows | normalize.quantiles.in.blocks |
Robust Quantile Normalization | normalize.AffyBatch.quantiles.robust normalize.quantiles.robust |
Quantile Normalization using a specified target distribution vector | normalize.quantiles.determine.target normalize.quantiles.use.target |
Fit robust row-column models to a matrix | rcModelPLMd |
Fit robust row-column models to a matrix | rcModelPLMr rcModelPLMrc rcModelPLMrr rcModelWPLMr rcModelWPLMrc rcModelWPLMrr |
Fit row-column model to a matrix | rcModelMedianPolish rcModelPLM rcModelWPLM |
RMA Background Correction | rma.background.correct |
Summarize columns when divided into groups of rows | convert.group.labels subColSummarizeAvg subColSummarizeAvgLog subColSummarizeBiweight subColSummarizeBiweightLog subColSummarizeLogAvg subColSummarizeLogMedian subColSummarizeMedian subColSummarizeMedianLog subColSummarizeMedianpolish subColSummarizeMedianpolishLog |
Fit row-column model to a matrix | subrcModelMedianPolish subrcModelPLM subrcModelWPLM |