Package: MetaLonDA 1.1.8
Ahmed A. Metwally
MetaLonDA: Metagenomics Longitudinal Differential Abundance Method
Identify time intervals of differentially abundant metagenomic features in longitudinal studies (Metwally AA, et al., Microbiome, 2018 <doi:10.1186/s40168-018-0402-y>).
Authors:
MetaLonDA_1.1.8.tar.gz
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MetaLonDA_1.1.8.tgz(r-4.4-any)MetaLonDA_1.1.8.tgz(r-4.3-any)
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MetaLonDA.pdf |MetaLonDA.html✨
MetaLonDA/json (API)
# Install 'MetaLonDA' in R: |
install.packages('MetaLonDA', repos = c('https://aametwally.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/aametwally/metalonda/issues
- metalonda_test_data - Simulated data of OTU abundance for 2 phenotypes each has 5 subjects at 10 time-points
differential-abundance-methodslongitudinal-studiesmetagenomicsmicrobiomenegative-binomial-distributionsmoothing-splines
Last updated 5 years agofrom:263e1d33c4. Checks:OK: 1 NOTE: 6. Indexed: yes.
Target | Result | Date |
---|---|---|
Doc / Vignettes | OK | Oct 14 2024 |
R-4.5-win | NOTE | Oct 14 2024 |
R-4.5-linux | NOTE | Oct 14 2024 |
R-4.4-win | NOTE | Oct 14 2024 |
R-4.4-mac | NOTE | Oct 14 2024 |
R-4.3-win | NOTE | Oct 14 2024 |
R-4.3-mac | NOTE | Oct 14 2024 |
Exports:areaPermutationcurveFittingfindSigIntervalintervalAreametalondametalondaAllnormalizepermutationvisualizeAreavisualizeARHistogramvisualizeFeaturevisualizeFeatureSplinevisualizeTimeIntervalsvisualizeVolcanoPlot
Dependencies:abindaskpassBHBiobaseBiocGenericsBiocParallelbitopscaToolsclicodetoolscolorspacecpp11crayoncurlDelayedArrayDESeq2doParalleledgeRfansifarverforeachformatRfutile.loggerfutile.optionsGenomeInfoDbGenomeInfoDbDataGenomicRangesggplot2glmnetgluegplotsgssgtablegtoolshttrIRangesisobanditeratorsjsonliteKernSmoothlabelinglambda.rlatticelifecyclelimmalocfitmagrittrMASSMatrixMatrixGenericsmatrixStatsmetagenomeSeqmgcvmimemunsellnlmeopensslpillarpkgconfigplyrpracmaR6RColorBrewerRcppRcppArmadilloRcppEigenrlangS4ArraysS4VectorsscalesshapesnowSparseArraystatmodSummarizedExperimentsurvivalsystibbleUCSC.utilsutf8vctrsviridisLitewithrWrenchXVectorzlibbioczoo