Other packages > Find by keyword >

wrMisc  

Analyze Experimental High-Throughput (Omics) Data
View on CRAN: Click here


Download and install wrMisc package within the R console
Install from CRAN:
install.packages("wrMisc")

Install from Github:
library("remotes")
install_github("cran/wrMisc")

Install by package version:
library("remotes")
install_version("wrMisc", "1.15.2")



Attach the package and use:
library("wrMisc")
Maintained by
Wolfgang Raffelsberger
[Scholar Profile | Author Map]
All associated links for this package
First Published: 2019-11-04
Latest Update: 2024-02-28
Description:
The efficient treatment and convenient analysis of experimental high-throughput (omics) data gets facilitated through this collection of diverse functions. Several functions address advanced object-conversions, like manipulating lists of lists or lists of arrays, reorganizing lists to arrays or into separate vectors, merging of multiple entries, etc. Another set of functions provides speed-optimized calculation of standard deviation (sd), coefficient of variance (CV) or standard error of the mean (SEM) for data in matrixes or means per line with respect to additional grouping (eg n groups of replicates). Other functions facilitate dealing with non-redundant information, by indexing unique, adding counters to redundant or eliminating lines with respect redundancy in a given reference-column, etc. Help is provided to identify very closely matching numeric values to generate (partial) distance matrixes for very big data in a memory efficient manner or to reduce the complexity of large data-sets by combining very close values. Many times large experimental datasets need some additional filtering, adequate functions are provided. Batch reading (or writing) of sets of files and combining data to arrays is supported, too. Convenient data normalization is supported in various different modes, parameter estimation via permutations or boot-strap as well as flexible testing of multiple pair-wise combinations using the framework of 'limma' is provided, too.
How to cite:
Wolfgang Raffelsberger (2019). wrMisc: Analyze Experimental High-Throughput (Omics) Data. R package version 1.15.2, https://cran.r-project.org/web/packages/wrMisc. Accessed 18 Feb. 2025.
Previous versions and publish date:
1.0.4 (2019-11-04 17:30), 1.1.0 (2019-12-09 13:10), 1.2.0 (2020-04-23 18:30), 1.2.3 (2020-06-16 20:20), 1.2.4 (2020-07-03 18:20), 1.3.0 (2020-07-24 09:10), 1.3.1 (2020-09-18 16:30), 1.4.0 (2020-10-15 17:30), 1.4.1 (2020-11-13 15:20), 1.4.2 (2020-11-20 15:40), 1.5.0 (2020-12-07 16:40), 1.5.1 (2021-01-13 17:50), 1.5.2 (2021-02-09 14:40), 1.5.3 (2021-02-26 07:00), 1.5.4 (2021-03-31 14:30), 1.6.0 (2021-06-04 13:40), 1.6.1 (2021-08-11 18:20), 1.6.2 (2021-09-16 17:30), 1.7.0 (2021-10-28 17:20), 1.8.0 (2021-12-14 16:30), 1.8.1 (2022-01-24 16:10), 1.9.0 (2022-03-25 13:00), 1.9.1 (2022-04-13 16:10), 1.9.2 (2022-07-07 01:20), 1.10.0 (2022-10-03 11:40), 1.10.1 (2022-10-17 18:40), 1.10.2 (2022-11-02 15:40), 1.11.0 (2023-01-06 19:50), 1.11.1 (2023-01-25 10:20), 1.12.0 (2023-03-20 19:20), 1.13.0 (2023-08-10 20:00), 1.14.0 (2023-11-17 12:40), 1.14.1 (2024-02-14 01:40), 1.14.2 (2024-02-28 14:10), 1.15.0.3 (2024-05-10 15:30), 1.15.1 (2024-07-22 14:50)
Other packages that cited wrMisc R package
View wrMisc citation profile
Other R packages that wrMisc depends, imports, suggests or enhances
Complete documentation for wrMisc
Functions, R codes and Examples using the wrMisc R package
Some associated functions: XYToDiffPpm . addBeforFileExtension . adjBy2ptReg . adjustUnitPrefix . appendNR . arrayCV . asSepList . buildTree . cbindNR . checkAvSd . checkFilePath . checkGrpOrder . checkGrpOrderSEM . checkSimValueInSer . checkStrictOrder . checkVectLength . cleanReplicates . closeMatchMatrix . coinPermTest . colMedSds . colSds . colorAccording2 . combinatIntTable . combineAsN . combineByEitherFactor . combineOverlapInfo . combineRedBasedOnCol . combineRedundLinesInListAcRef . combineReplFromListToMatr . combineSingleT . completeArrLst . concatMatch . confInt . contribToContigPerFrag . conv01toColNa . convColorToTransp . convMatr2df . convToNum . coordOfFilt . correctToUnique . correctWinPath . countCloseToLimits . countSameStartEnd . cutArrayInCluLike . cutAtMultSites . cutToNgrp . diffCombin . diffPPM . dot-addLetterWoLast . dot-allRatioMatr1to2 . dot-allRatios . dot-arrLstMean . dot-arrLstSEM . dot-asDF2 . dot-breakInSer . dot-bringToCtr . dot-checkArgNa . dot-checkConsistentArrList . dot-checkConvt2Vect . dot-checkFactor . dot-checkFileNameExtensions . dot-checkLegendLoc . dot-checkLmConfInt . dot-checkRegrArguments . dot-chooseGrpCol . dot-combineListAnnot . dot-compareByDiff . dot-compareByLogRatio . dot-compareByPPM . dot-complCols . dot-composeCallName . dot-convertMatrToNum . dot-convertNa . dot-corDuplItemsByIncrem . dot-cutAtSearch . dot-cutStr . dot-datSlope . dot-extrNAneighb . dot-extrNumHeadingCap . dot-extrNumHeadingSepChar . dot-filtSize . dot-filterNetw . dot-filterSw . dot-findBorderOverlaps . dot-firstMin . dot-fuse2ArrBy2ndDim . dot-getAmean . dot-getAmean2 . dot-getMvalue2 . dot-growTree . dot-insp1dimByClustering . dot-inspectHeader . dot-keepCenter1d . dot-keepFiniteCol . dot-mayBeNum . dot-medianSpecGrp . dot-mergeMatrices . dot-minDif . dot-neigbDis . dot-normConstSlope . dot-normalize . dot-offCenter . dot-pasteCols . dot-plotCountPie . dot-plusLowerCaps . dot-predRes . dot-raiseColLowest . dot-removeCol . dot-removeEmptyCol . dot-replSpecChar . dot-retain1stPart . dot-rowGrpCV . dot-rowGrpMeans . dot-rowGrpSds . dot-rowGrpSums . dot-rowNorm . dot-rowNormFact . dot-scale01 . dot-scaleSpecGrp . dot-scaleXY . dot-seqCutStr . dot-setLowestTo . dot-sortMid . dot-stackArray . dot-summarizeCols . dot-trimFromEnd . dot-trimFromStart . dot-trimLeft . dot-trimRight . dot-uniqueWName . dot-vector2Matr . elimCloseCoord . equLenNumber . exclExtrValues . exponNormalize . extr1chan . extrColsDeX . extrNumericFromMatr . extrSpcText . extractLast2numericParts . filt3dimArr . filtSizeUniq . filterLiColDeList . filterList . filterNetw . findCloseMatch . findRepeated . findSimilFrom2sets . findUsableGroupRange . firstLineOfDat . firstOfRepLines . firstOfRepeated . fuseAnnotMatr . fuseCommonListElem . fusePairs . get1stOfRepeatedByCol . getValuesByUnique . gitDataUrl . htmlSpecCharConv . keepCommonText . levIndex . linModelSelect . linRegrParamAndPVal . listBatchReplace . listGroupsByNames . lmSelClu . lrbind . makeMAList . makeNRedMatr . matchMatrixLinesToRef . matchNamesWithReverseParts . matchSampToPairw . matr2list . mergeMatrices . mergeMatrixList . mergeSelCol . mergeSelCol3 . mergeVectors . mergeW2 . minDiff . moderTest2grp . moderTestXgrp . multiCharReplace . multiMatch . nFragments . nFragments0 . nNonNumChar . naOmit . nonAmbiguousMat . nonAmbiguousNum . nonRedundLines . nonredDataFrame . normalizeThis . numPairDeColNames . orderMatrToRef . organizeAsListOfRepl . pVal2lfdr . packageDownloadStat . pairsAsPropensMatr . partUnlist . partialDist . pasteC . presenceFilt . presenceGrpFilt . protectSpecChar . randIndFx . rankToContigTab . ratioAllComb . ratioToPpm . readCsvBatch . readTabulatedBatch . readVarColumns . readXlsxBatch . reduceTable . regrBy1or2point . regrMultBy1or2point . renameColumns . reorgByCluNo . replNAbyLow . replPlateCV . replicateStructure . rmDupl2colMatr . rmEnumeratorName . rnormW . rowCVs . rowGrpCV . rowGrpMeans . rowGrpNA . rowGrpSds . rowGrpSums . rowMedSds . rowNormalize . rowSEMs . rowSds . sampNoDeMArrayLM . scaleXY . searchDataPairs . searchLinesAtGivenSlope . simpleFragFig . singleLineAnova . sortBy2CategorAnd1IntCol . sortByNRepeated . stableMode . standardW . stdErrMedBoot . sumNAperGroup . summarizeCols . sysDate . tTestAllVal . tableToPlot . test2factLimma . transpGraySca . treatTxtDuplicates . triCoord . trimRedundText . unifyEnumerator . uniqCountReport . upperMaCoord . withinRefRange . writeCsv . 
Some associated R codes: XYToDiffPpm.R . addBeforFileExtension.R . adjBy2ptReg.R . adjustUnitPrefix.R . appendNR.R . arrayCV.R . asSepList.R . buildTree.R . cbindNR.R . checkAvSd.R . checkFilePath.R . checkGroupOrder.R . checkGroupOrderSEM.R . checkSimValueInSer.R . checkStrictOrder.R . checkVectLength.R . cleanReplicates.R . closeMatchMatrix.R . coinPermTest.R . colMedSds.R . colSds.R . colorAccording2.R . combinatIntTable.R . combineAsN.R . combineByEitherFactor.R . combineOverlapInfo.R . combineRedBasedOnCol.R . combineRedundLinesInList.R . combineReplFromListToMatr.R . combineSingleT.R . completeArrLst.R . concatMatch.R . confInt.R . contribToContigPerFrag.R . conv01toColNa.R . convColorToTransp.R . convMatr2df.R . convToNum.R . coordOfFilt.R . correctToUnique.R . correctWinPath.R . countCloseToLimits.R . countSameStartEnd.R . cutArrayInCluLike.R . cutAtMultSites.R . cutToNgrp.R . diffCombin.R . diffPPM.R . elimCloseCoord.R . equLenNumber.R . exclExtrValues.R . exponNormalize.R . extrColsDeX.R . extrNumericFromMatr.R . extrSpcText.R . extract1chan.R . extractLast2numericParts.R . filt3dimArr.R . filtSizeUniq.R . filterLiColDeList.R . filterList.R . filterNetw.R . findCloseMatch.R . findRepeated.R . findSimilFrom2sets.R . findUsableGroupRange.R . firstLineOfDat.R . firstOfRepLines.R . firstOfRepeated.R . fuseAnnotMatr.R . fuseCommonListElem.R . fusePairs.R . get1stOfRepeatedByCol.R . getValuesByUnique.R . gitDataUrl.R . htmlSpecCharConv.R . keepCommonText.R . levIndex.R . linModelSelect.R . linRegrParamAndPVal.R . listBatchReplace.R . listGroupsByNames.R . lmSelClu.R . lrbind.R . makeMAList.R . makeNRedMatr.R . matchMatrixLinesToRef.R . matchNamesWithReverseParts.R . matchSampToPairw.R . matr2list.R . mergeMatrices.R . mergeSelCol.R . mergeVectors.R . mergeW2.R . minDiff.R . moderTest2grp.R . moderTestXgrp.R . multiCharReplace.R . multiMatch.R . nFragments.R . nNonNumChar.R . naOmit.R . nonAmbiguousMat.R . nonAmbiguousNum.R . nonRedundLines.R . nonredDataFrame.R . normalizeThis.R . numPairDeColNames.R . orderMatrToRef.R . organizeAsListOfRepl.R . pVal2lfdr.R . packageDownloadStat.R . pairsAsPropensMatr.R . partUnlist.R . partialDist.R . pasteC.R . presenceFilt.R . presenceGrpFilt.R . protectSpecChar.R . randIndFx.R . rankToContigTab.R . ratioAllComb.R . ratioToPpm.R . readCsvBatch.R . readTabulatedBatch.R . readVarColumns.R . readXlsxBatch.R . reduceTable.R . regrBy1or2point.R . regrMultBy1or2point.R . renameColumns.R . reorgByCluNo.R . replNAbyLow.R . replPlateCV.R . replicateStructure.R . rmDupl2colMatr.R . rmEnumeratorName.R . rnormW.R . rowCVs.R . rowGrpCV.R . rowGrpMeans.R . rowGrpNA.R . rowGrpSds.R . rowGrpSums.R . rowMedSds.R . rowNormalize.R . rowSEMs.R . rowSds.R . sampNoDeMArrayLM.R . scaleXY.R . searchDataPairs.R . searchLinesAtGivenSlope.R . simpleFragFig.R . singleLineAnova.R . sortBy2CategorAnd1intCol.R . sortByNRepeated.R . stableMode.R . standardW.R . stdErrMedBoot.R . sumNAperGroup.R . summarizeCols.R . sysDate.R . t.testAllInd.R . tableToPlot.R . test2factLimma.R . transpGraySca.R . treatTxtDuplicates.R . triCoord.R . trimRedundText.R . unifyEnumerator.R . uniqCountReport.R . upperMaCoord.R . withinRefRange.R . writeCsv.R .  Full wrMisc package functions and examples
Downloads during the last 30 days
Get rewarded with contribution points by helping add
Reviews / comments / questions /suggestions ↴↴↴

Today's Hot Picks in Authors and Packages

OptGS  
Near-Optimal Group-Sequential Designs for Continuous Outcomes
Optimal group-sequential designs minimise some function of the expected and maximum sample size whil ...
Download / Learn more Package Citations See dependency  
MOSS  
Multi-Omic Integration via Sparse Singular Value Decomposition
High dimensionality, noise and heterogeneity among samples and features challenge the omic integrat ...
Download / Learn more Package Citations See dependency  
readxlsb  
Read 'Excel' Binary (.xlsb) Workbooks
Import data from 'Excel' binary (.xlsb) workbooks into R. ...
Download / Learn more Package Citations See dependency  
fclust  
Fuzzy Clustering
Algorithms for fuzzy clustering, cluster validity indices and plots for cluster validity and visuali ...
Download / Learn more Package Citations See dependency  
r2resize  
In-Text Resize for Images, Tables and Fancy Resize Containers in 'shiny', 'rmarkdown' and 'quarto' Documents
Automatic resizing toolbar for containers, images and tables. Various resizable or expandable contai ...
Download / Learn more Package Citations See dependency  
clustMixType  
k-Prototypes Clustering for Mixed Variable-Type Data
Functions to perform k-prototypes partitioning clustering for mixed variable-type data according to ...
Download / Learn more Package Citations See dependency  

23,712

R Packages

205,795

Dependencies

64,332

Author Associations

23,631

Publication Badges

© Copyright since 2022. All right reserved, rpkg.net.  Based in Cambridge, Massachusetts, USA