Files in YuLab-SMU/MicrobiotaProcess
A comprehensive R package for managing and analyzing microbiome and other ecological data within the tidy framework

.Rbuildignore

.gitignore

DESCRIPTION

Makefile

NAMESPACE

NEWS.md R/AllClass.R R/alldata.R R/diff-analysis-utilities.R R/diff-ml-utilities.R R/internals.R R/method-MPSE-utilities.R R/method-accessor.R R/method-as-MPSE.R R/method-as-phyloseq.R R/method-as.data.frame.R R/method-as.treedata.R R/method-binary_offspring.R R/method-diff-analysis.R R/method-download-seq.R R/method-dplyr.R R/method-dr-tibble.R R/method-generalizedFC.R R/method-get-count-ratio.R R/method-ggplot2.R R/method-io-utilities.R R/method-io.R R/method-mean-median.R R/method-mp_adonis_anosim.R R/method-mp_aggregate.R R/method-mp_aggregate_clade.R R/method-mp_cal_abundance.R R/method-mp_cal_alpha.R R/method-mp_cal_clust.R R/method-mp_cal_dist.R R/method-mp_cal_pca.R R/method-mp_cal_pcoa.R R/method-mp_cal_pd_metric.R R/method-mp_cal_rarecurve.R R/method-mp_cal_upset.R R/method-mp_cal_venn.R R/method-mp_decostand.R R/method-mp_diff_analysis.R R/method-mp_diff_clade.R R/method-mp_envfit.R R/method-mp_filter_taxa.R R/method-mp_fortify.R R/method-mp_mantel.R R/method-mp_rda_cca.R R/method-mp_rrarefy.R R/method-mp_stat_taxa.R R/method-related_phylo_metric.R R/method-show.R R/method-tibble.R R/method-tidyr.R R/plot-ggbartaxa.R R/plot-ggbox.R R/plot-ggclust.R R/plot-ggdiffbartaxa.R R/plot-ggdiffbox.R R/plot-ggdiffclade.R R/plot-ggeffectsize.R R/plot-ggordpoint-utilities.R R/plot-ggordpoint.R R/plot-ggrarecurve.R R/plot-methods.R R/reexports.R R/taxa_utilities.R R/tidy_utilities.R R/utilities.R R/zzz.R README.Rmd README.md

data/datalist

data/hmp_aerobiosis_small.rda

data/kostic2012crc.rda

data/mouse.time.mpse.rda

data/test_otu_data.rda

inst/CITATION

inst/extdata/MetaPhlAn/metaphlan_test.txt

inst/extdata/MetaPhlAn/sample_test.txt

inst/extdata/metadata_qza.txt

inst/extdata/mouse.time.dada2.txt

inst/extdata/mouse_feature_matrix.txt

inst/extdata/mouse_sample_info.txt

inst/extdata/mouse_taxda.txt

inst/extdata/otu_tax_table.txt

inst/extdata/sample_info.txt

inst/extdata/seqtab.nochim.rds

inst/extdata/table.qza

inst/extdata/taxa.qza

inst/extdata/taxa_tab.rds

inst/figures/mp-design.png

inst/figures/mpse.png

vignettes/mp-design.png

vignettes/mpse.png

vignettes/refer.bib

YuLab-SMU/MicrobiotaProcess documentation built on Nov. 8, 2024, 4:37 p.m.

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YuLab-SMU/MicrobiotaProcess
A comprehensive R package for managing and analyzing microbiome and other ecological data within the tidy framework

Files in YuLab-SMU/MicrobiotaProcess
A comprehensive R package for managing and analyzing microbiome and other ecological data within the tidy framework

R Package Documentation

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YuLab-SMU/MicrobiotaProcess A comprehensive R package for managing and analyzing microbiome and other ecological data within the tidy framework

Files in YuLab-SMU/MicrobiotaProcess A comprehensive R package for managing and analyzing microbiome and other ecological data within the tidy framework

R Package Documentation

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YuLab-SMU/MicrobiotaProcess
A comprehensive R package for managing and analyzing microbiome and other ecological data within the tidy framework

Files in YuLab-SMU/MicrobiotaProcess
A comprehensive R package for managing and analyzing microbiome and other ecological data within the tidy framework