Package: ComPrAn 1.20.0

Petra Palenikova

ComPrAn: Complexome Profiling Analysis package

This package is for analysis of SILAC labeled complexome profiling data. It uses peptide table in tab-delimited format as an input and produces ready-to-use tables and plots.

Authors:Rick Scavetta [aut], Petra Palenikova [aut, cre]

ComPrAn_1.20.0.tar.gz
ComPrAn_1.20.0.zip(r-4.7-any)ComPrAn_1.20.0.zip(r-4.6-any)ComPrAn_1.20.0.zip(r-4.5-any)
ComPrAn_1.20.0.tgz(r-4.6-any)ComPrAn_1.20.0.tgz(r-4.5-any)
ComPrAn_1.20.0.tar.gz(r-4.7-any)ComPrAn_1.20.0.tar.gz(r-4.6-any)
ComPrAn_1.20.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
ComPrAn/json (API)

# Install 'ComPrAn' in R:
install.packages('ComPrAn', repos = c('https://bioc-release.r-universe.dev', 'https://cloud.r-project.org'))

On BioConductor:ComPrAn-1.21.0(bioc 3.24)ComPrAn-1.20.0(bioc 3.23)

This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.

massspectrometryproteomicsvisualization

4.48 score 6 scripts 276 downloads 1 mentions 19 exports 93 dependencies

Last updated from:97e1926d76 (on RELEASE_3_23). Checks:1 WARNING, 9 OK. Indexed: no.

TargetResultTimeFilesSyslog
bioc-checksWARNING193
linux-devel-x86_64OK245
source / vignettesOK283
linux-release-x86_64OK227
macos-release-arm64OK106
macos-oldrel-arm64OK109
windows-develOK123
windows-releaseOK119
windows-oldrelOK118
wasm-releaseOK151

Exports:allPeptidesPlotassignClusterscleanDataclusterCompcompranAppexportClusterAssignmentsgetNormTablegroupHeatMapmakeBarPlotClusterSummaryoneGroupTwoLabelsCoMigrationonlyInOneLabelStatepeptideImportpickPeptideproteinPlotprotImportForAnalysissimplifyProteinssplitModLabtoFiltertwoGroupsWithinLabelCoMigration

Dependencies:base64encbitbit64bslibcachemcellrangerclicliprcommonmarkcpp11crayoncrosstalkcurldata.tabledigestdplyrDTevaluatefarverfastmapfontawesomeforcatsforeignformatRfsfutile.loggerfutile.optionsgenericsggplot2gluegtablehavenhighrhmshtmltoolshtmlwidgetshttpuvisobandjquerylibjsonliteknitrlabelinglambda.rlaterlazyevallifecyclemagrittrmemoisemimeotelpillarpkgconfigprettyunitsprogresspromisespurrrR.methodsS3R.ooR.utilsR6rappdirsRColorBrewerRcppreadrreadxlrematchriorlangrmarkdownS7sassscalesshinyshinydashboardshinyjssourcetoolsstringistringrtibbletidyrtidyselecttinytextzdbutf8vctrsVennDiagramviridisLitevroomwithrwritexlxfunxtableyaml

Protein workflow
Introduction | Method description | 0) Re-formatting of input file | 1) Hierarchical clustering | 2) Export files and visualizations | Example protein workflow | Visualization of normalised protein data | Cluster analysis
Rendered fromproteinWorkflow.Rmdusingknitr::rmarkdown

Last update: 2021-01-26
Started: 2019-08-14

SILAC complexomics
Introduction | Method description | 1) Estimation of protein intensities from peptide intensities | 2) Normalization of protein intensities | 3) Hierarchical clustering | 4) Export files and visualizations | Example workflow
Rendered fromSILACcomplexomics.Rmdusingknitr::rmarkdown

Last update: 2021-01-26
Started: 2019-08-13

Input File Description
Peptide input file | Description of columns | Normalised proteins input file
Rendered fromfileFormats.rmdusingknitr::rmarkdown

Last update: 2020-12-23
Started: 2019-08-14