Package: metaprotr 1.2.2

metaprotr: Metaproteomics Post-Processing Analysis

Set of tools for descriptive analysis of metaproteomics data generated from high-throughput mass spectrometry instruments. These tools allow to cluster peptides and proteins abundance, expressed as spectral counts, and to manipulate them in groups of metaproteins. This information can be represented using multiple visualization functions to portray the global metaproteome landscape and to differentiate samples or conditions, in terms of abundance of metaproteins, taxonomic levels and/or functional annotation. The provided tools allow to implement flexible analytical pipelines that can be easily applied to studies interested in metaproteomics analysis.

Authors:Aaron Millan-Oropeza [aut, cre], Catherine Juste [aut, ctb], Ariane Bassignani [aut, ctb], Céline Henry [aut, ctb]

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metaprotr/json (API)
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23 exports 1 stars 0.09 score 121 dependencies 209 downloads

Last updated 4 years agofrom:6ffb9d080a. Checks:OK: 1 NOTE: 6. Indexed: yes.

Exports:add_keggadd_taxonomycrumble_taxonomyexport_ipath3export_robjectexport_vennlistsfilter_sharedfilter_textfilter_unsharedgetsc_specificidentify_differencesinspect_sample_elementsload_protspepsplot_dendoclusterplot_fulltaxoplot_intensitiesplot_intensities_ratioplot_pcaplot_pietaxoplot_stackedtaxoplot_vennremove_elementselect_element

Dependencies:ade4askpassbackportsbase64encbitbit64blobbroombslibcachemcallrcellrangerclicliprcolorspaceconflictedcpp11crayoncurldata.tableDBIdbplyrdendextenddigestdplyrdtplyrevaluatefansifarverfastmapfontawesomeforcatsfsgarglegenericsggforceggplot2ggrepelgluegoogledrivegooglesheets4gridExtragtablehavenhighrhmshtmltoolshttridsisobandjquerylibjsonliteknitrlabelinglatticelifecyclelubridatemagrittrMASSMatrixmemoisemgcvmimemodelrmunsellnlmeopensslpillarpixmappkgconfigplyrpolyclipprettyunitsprocessxprogresspspurrrR6raggrappdirsRColorBrewerRcppRcppArmadilloRcppEigenreadrreadxlrematchrematch2reprexreshape2rlangrmarkdownrstudioapirvestsassscalesselectrspstringistringrsyssystemfontstextshapingtibbletidyrtidyselecttidyversetimechangetinytextweenrtzdbutf8uuidvctrsviridisviridisLitevroomwithrxfunxml2yaml