Package: PolySTest 1.7.0
PolySTest: PolySTest: Detection of differentially regulated features. Combined statistical testing for data with few replicates and missing values
The complexity of high-throughput quantitative omics experiments often leads to low replicates numbers and many missing values. We implemented a new test to simultaneously consider missing values and quantitative changes, which we combined with well-performing statistical tests for high confidence detection of differentially regulated features. The package contains functions to run the test and to visualize the results.
Authors:
PolySTest_1.7.0.tar.gz
PolySTest_1.7.0.zip(r-4.7)PolySTest_1.7.0.zip(r-4.6)PolySTest_1.7.0.zip(r-4.5)
PolySTest_1.7.0.tgz(r-4.6-any)PolySTest_1.7.0.tgz(r-4.5-any)
PolySTest_1.7.0.tar.gz(r-4.7-any)PolySTest_1.7.0.tar.gz(r-4.6-any)
PolySTest_1.7.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
card.svg |card.png
PolySTest/json (API)
NEWS
| # Install 'PolySTest' in R: |
| install.packages('PolySTest', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/computproteomics/polystest/issues
- liver_example - Example data set liver_example for PolySTest
On BioConductor:PolySTest-1.7.0(bioc 3.24)PolySTest-1.6.0(bioc 3.23)
massspectrometryproteomicssoftwaredifferentialexpressioncsvdifferential-protein-expression-profilingdsvexpression-datagene-expression-profileheat-maphistogramp-valueproteomics-experimentq-valuestatistical-modellingstatistics-and-probabilitysvg
Last updated from:92e6451639. Checks:8 NOTE, 2 OK. Indexed: yes.
| Target | Result | Time | Files | Syslog |
|---|---|---|---|---|
| bioc-checks | NOTE | 202 | ||
| linux-devel-x86_64 | NOTE | 540 | ||
| source / vignettes | OK | 336 | ||
| linux-release-x86_64 | NOTE | 455 | ||
| macos-release-arm64 | NOTE | 343 | ||
| macos-oldrel-arm64 | NOTE | 286 | ||
| windows-devel | NOTE | 440 | ||
| windows-release | NOTE | 401 | ||
| windows-oldrel | NOTE | 452 | ||
| wasm-release | OK | 177 |
Exports:calculate_qvaluescheck_for_polystestcheck_stat_namescreate_pairwise_comparisonsFindFCandQlimFindFCandQlimAlternativeget_numthreadslimma_pairedlimma_unpairedMissingStatsMissingStatsDesignMissValPDistrperm_unpairedpermtest_pairedplotExpressionplotHeatmaplyplotPvalueDistrplotRegNumberplotUpsetplotVolcanoPolySTest_pairedPolySTest_unpairedrp_unpairedRPStatsset_mfrowStatsForPermutTestttest_pairedttest_unpairedupdate_conditions_with_lcs
Dependencies:abindaskpassassertthatbase64encBiobaseBiocGenericsbitopsbslibcacachemcallrcaToolscirclizecliclustercodetoolscolorspacecommonmarkcpp11crosstalkcurldata.tableDelayedArraydendextenddigestdplyreggevaluatefarverfastmapfdrtoolfontawesomeforeachfsgclusgenericsGenomicRangesggplot2GlobalOptionsgluegplotsgridExtragtablegtoolsheatmaplyhighrhtmltoolshtmlwidgetshttpuvhttrIRangesisobanditeratorsjquerylibjsonliteKernSmoothknitrlabelinglaterlatticelazyevallifecyclelimmamagrittrMASSMatrixMatrixGenericsmatrixStatsmemoisemgcvmimenlmeopensslotelpermutepillarpkgconfigplotlyplyrprocessxpromisespspurrrqapqvalueR6rappdirsRColorBrewerRcppregistryreshape2rlangrmarkdownS4ArraysS4VectorsS7sassscalesSeqinfoseriationshapeshinysourcetoolsSparseArraystatmodstringistringrSummarizedExperimentsystibbletidyrtidyselecttinytexTSPUpSetRutf8vctrsveganviridisviridisLitewebshotwithrxfunxtableXVectoryaml
