momr: Mining Metaomics Data (MetaOMineR)

'MetaOMineR' suite is a set of R packages that offers many functions and modules needed for the analyses of quantitative metagenomics data. 'momr' is the core package and contains routines for biomarker identification and exploration. Developed since the beginning of field, 'momr' has evolved and is structured around the different modules such as preprocessing, analysis, vizualisation, etc. See package help for more information.

AuthorEdi Prifti, Emmanuelle Le Chatelier
Date of publication2015-07-27 12:42:14
MaintainerEdi Prifti <edi.prifti@gmail.com>
LicenseArtistic-2.0
Version1.1

View on CRAN

Man pages

abondanceScore: abondanceScore

aggregateProfiles: aggregateProfiles

buildMgsFinal: buildMgsFinal @date December 20th 2013

computeFilteredVectors: computeFilteredVectors

computeSignalMetrics: computeSignalMetrics

computeUpsizedGC: computeUpsizedGC

connectivity: connectivity

countSampledGenes: countSampledGenes

countSampledGenesGC: countSampledGenesGC

deleteData: deleteData

downsizedRichnessL2T: downsizedRichnessL2T

downsizeGC: downsizeGC

downsizeGC.all: downsizeGC.all

downsizeMatrix: downsizeMatrix

extractProfiles: extractProfiles

extractSignificant: extractSignificant

filterListGenebags: filterListGenebags

filterMat: filterMat

filt.hierClust: filt.hierClust

hierClust: hierClust

hs_3.3_metahit_genesize: hs_3.3_metahit_genesize

hs_3.3_metahit_sample_dat_freq: hs_3.3_metahit_sample_dat_freq

hs_3.3_metahit_sample_dat_raw: hs_3.3_metahit_sample_dat_raw

indexReads: indexReads

indexReadsGC: indexReadsGC

launchTask: launchTask

lmp: lmp

mapResults: mapResults

mgs_hs_3.3_metahit_sup500: mgs_hs_3.3_metahit_sup500

momr-package: Mining Metaomics Data In R

normFreqRPKM: normFreqRPKM

normFreqTC: normFreqTC

phenoPairwiseRelations: phenoPairwiseRelations

plotBarcode: plotBarcode

plotBarcode2: plotBarcode2

plotBarcodeBW: plotBarcodeBW

plotCors: plotCors

plotCors2: plotCors2

plotMGSQuality: plotMGSQuality

plotPvals: plotPvals

presenceScore: presenceScore

profiles2Genebags: profiles2Genebags

projectOntoMGS: projectOntoMGS

sampleRandomly: sampleRandomly

selectListSize: selectListSize

splitData: splitData

testRelations: testRelations

watchProgress: watchProgress

Files in this package

momr
momr/inst
momr/inst/CITATION
momr/inst/usage.R
momr/inst/momr_introduction.Rmd
momr/inst/momr_introduction.tex
momr/inst/momr_introduction.pdf
momr/NAMESPACE
momr/data
momr/data/hs_3.3_metahit_genesize.rda
momr/data/mgs_hs_3.3_metahit_sup500.rda
momr/data/hs_3.3_metahit_sample_dat_freq.rda
momr/data/datalist
momr/data/hs_3.3_metahit_sample_dat_raw.rda
momr/R
momr/R/querries.R momr/R/analyses.R momr/R/normalization.R momr/R/data.R momr/R/visualization.R momr/R/filtering.R momr/R/downsizing.R momr/R/mapreduce.R
momr/MD5
momr/DESCRIPTION
momr/man
momr/man/plotBarcodeBW.Rd momr/man/mapResults.Rd momr/man/watchProgress.Rd momr/man/launchTask.Rd momr/man/splitData.Rd momr/man/countSampledGenes.Rd momr/man/abondanceScore.Rd momr/man/projectOntoMGS.Rd momr/man/connectivity.Rd momr/man/momr-package.Rd momr/man/profiles2Genebags.Rd momr/man/selectListSize.Rd momr/man/plotPvals.Rd momr/man/filterListGenebags.Rd momr/man/buildMgsFinal.Rd momr/man/computeSignalMetrics.Rd momr/man/plotMGSQuality.Rd momr/man/phenoPairwiseRelations.Rd momr/man/downsizeGC.Rd momr/man/computeFilteredVectors.Rd momr/man/hs_3.3_metahit_genesize.Rd momr/man/mgs_hs_3.3_metahit_sup500.Rd momr/man/hs_3.3_metahit_sample_dat_raw.Rd momr/man/sampleRandomly.Rd momr/man/plotBarcode.Rd momr/man/deleteData.Rd momr/man/indexReadsGC.Rd momr/man/plotCors2.Rd momr/man/extractSignificant.Rd momr/man/downsizeMatrix.Rd momr/man/extractProfiles.Rd momr/man/normFreqTC.Rd momr/man/indexReads.Rd momr/man/filterMat.Rd momr/man/downsizedRichnessL2T.Rd momr/man/computeUpsizedGC.Rd momr/man/plotBarcode2.Rd momr/man/lmp.Rd momr/man/plotCors.Rd momr/man/filt.hierClust.Rd momr/man/normFreqRPKM.Rd momr/man/hierClust.Rd momr/man/testRelations.Rd momr/man/presenceScore.Rd momr/man/hs_3.3_metahit_sample_dat_freq.Rd momr/man/aggregateProfiles.Rd momr/man/downsizeGC.all.Rd momr/man/countSampledGenesGC.Rd

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