Package: PeacoQC 1.17.0
Annelies Emmaneel
PeacoQC: Peak-based selection of high quality cytometry data
This is a package that includes pre-processing and quality control functions that can remove margin events, compensate and transform the data and that will use PeacoQCSignalStability for quality control. This last function will first detect peaks in each channel of the flowframe. It will remove anomalies based on the IsolationTree function and the MAD outlier detection method. This package can be used for both flow- and mass cytometry data.
Authors:
PeacoQC_1.17.0.tar.gz
PeacoQC_1.17.0.zip(r-4.5)PeacoQC_1.17.0.zip(r-4.4)PeacoQC_1.17.0.zip(r-4.3)
PeacoQC_1.17.0.tgz(r-4.4-any)PeacoQC_1.17.0.tgz(r-4.3-any)
PeacoQC_1.17.0.tar.gz(r-4.5-noble)PeacoQC_1.17.0.tar.gz(r-4.4-noble)
PeacoQC_1.17.0.tgz(r-4.4-emscripten)PeacoQC_1.17.0.tgz(r-4.3-emscripten)
PeacoQC.pdf |PeacoQC.html✨
PeacoQC/json (API)
NEWS
| # Install 'PeacoQC' in R: |
| install.packages('PeacoQC', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/saeyslab/peacoqc/issues
On BioConductor:PeacoQC-1.15.0(bioc 3.20)PeacoQC-1.14.0(bioc 3.19)
flowcytometryqualitycontrolpreprocessingpeakdetection
Last updated 23 days agofrom:3449ab9153. Checks:OK: 1 NOTE: 4 WARNING: 2. Indexed: yes.
| Target | Result | Date |
|---|---|---|
| Doc / Vignettes | OK | Oct 30 2024 |
| R-4.5-win | WARNING | Oct 31 2024 |
| R-4.5-linux | NOTE | Oct 30 2024 |
| R-4.4-win | NOTE | Oct 30 2024 |
| R-4.4-mac | NOTE | Oct 30 2024 |
| R-4.3-win | WARNING | Oct 31 2024 |
| R-4.3-mac | NOTE | Oct 31 2024 |
Exports:PeacoQCPeacoQCHeatmapPlotPeacoQCRemoveDoubletsRemoveMargins
Dependencies:abindBHBiobaseBiocGenericscirclizecliclueclustercodetoolscolorspaceComplexHeatmapcpp11crayoncytolibdata.tableDelayedArraydigestdoParalleldplyrfansifarverflowCoreflowWorkspaceforeachgenericsGetoptLongggplot2GlobalOptionsgluegraphgridExtragtableIRangesisobanditeratorslabelinglatticelifecyclemagrittrMASSMatrixMatrixGenericsmatrixStatsmgcvmunsellncdfFlownlmepillarpkgconfigplyrpngR6RBGLRColorBrewerRcppRgraphvizRhdf5librjsonrlangRProtoBufLibS4ArraysS4VectorsscalesshapeSparseArraytibbletidyselectutf8vctrsviridisLitewithrXMLXVectorzlibbioc
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| Peak-based detection of high quality cytometry data | PeacoQC |
| Make overview heatmap of quality control analysis | PeacoQCHeatmap |
| Visualise deleted cells of PeacoQC | PlotPeacoQC |
| Remove doublet events from flow cytometry data | RemoveDoublets |
| Remove margin events of flow cytometry data | RemoveMargins |
