Package: POMS 1.0.1

POMS: Phylogenetic Organization of Metagenomic Signals

Code to identify functional enrichments across diverse taxa in phylogenetic tree, particularly where these taxa differ in abundance across samples in a non-random pattern. The motivation for this approach is to identify microbial functions encoded by diverse taxa that are at higher abundance in certain samples compared to others, which could indicate that such functions are broadly adaptive under certain conditions. See 'GitHub' repository for tutorial and examples: <https://github.com/gavinmdouglas/POMS/wiki>. Citation: Gavin M. Douglas, Molly G. Hayes, Morgan G. I. Langille, Elhanan Borenstein (2022) <doi:10.1093/bioinformatics/btac655>.

Authors:Gavin Douglas [aut, cre]

POMS_1.0.1.tar.gz
POMS_1.0.1.zip(r-4.5)POMS_1.0.1.zip(r-4.4)POMS_1.0.1.zip(r-4.3)
POMS_1.0.1.tgz(r-4.4-any)POMS_1.0.1.tgz(r-4.3-any)
POMS_1.0.1.tar.gz(r-4.5-noble)POMS_1.0.1.tar.gz(r-4.4-noble)
POMS_1.0.1.tgz(r-4.4-emscripten)POMS_1.0.1.tgz(r-4.3-emscripten)
POMS.pdf |POMS.html✨
POMS/json (API)

Peer review:

Bug tracker:https://github.com/gavinmdouglas/poms/issues

On CRAN:

11 exports 19 stars 1.97 score 29 dependencies 4 scripts 291 downloads

Last updated 2 years agofrom:f1eca60b65. Checks:OK: 7. Indexed: yes.

Exports:abun_isometric_log_ratioscompute_node_balancesfilter_rare_table_colsgenome_content_phylo_regressnode_taxaphylolm_summaryPOMS_pipelineprep_func_node_infoprevalence_norm_logitspecificity_scoressubset_by_col_and_filt

Dependencies:apeclicodetoolscpp11data.tabledigestfastmatchfuturefuture.applygenericsglobalsglueigraphlatticelifecyclelistenvmagrittrMASSMatrixnlmeparallellyphangornphylolmpkgconfigquadprogRcpprlangvctrsXNomial