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 22 Dec. 2024.
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

elect  
Estimation of Life Expectancies Using Multi-State Models
Functions to compute state-specific and marginal life expectancies. The computation is based on a fi ...
Download / Learn more Package Citations See dependency  
tropAlgebra  
Tropical Algebraic Functions
It includes functions like tropical addition, tropical multiplication for vectors and matrices. In t ...
Download / Learn more Package Citations See dependency  
dmlalg  
Double Machine Learning Algorithms
Implementation of double machine learning (DML) algorithms in R, based on Emmenegger and Buehlmann ...
Download / Learn more Package Citations See dependency  
LOGANTree  
Tree-Based Models for the Analysis of Log Files from Computer-Based Assessments
Enables researchers to model log-file data from computer-based assessments using machine-learning te ...
Download / Learn more Package Citations See dependency  
Maintainer: Qi Qin (view profile)
composits  
Compositional, Multivariate and Univariate Time Series Outlier Ensemble
A compositional multivariate and univariate time series outlier ensemble.It uses the four R packages ...
Download / Learn more Package Citations See dependency  
Rfast2  
A Collection of Efficient and Extremely Fast R Functions II
A collection of fast statistical and utility functions for data analysis. Functions for regression, ...
Download / Learn more Package Citations See dependency  

23,394

R Packages

201,798

Dependencies

63,416

Author Associations

23,395

Publication Badges

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