Package: cellity 1.33.0
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Tomislav Ilicic
cellity: Quality Control for Single-Cell RNA-seq Data
A support vector machine approach to identifying and filtering low quality cells from single-cell RNA-seq datasets.
Authors:
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NEWS
# Install 'cellity' in R: |
install.packages('cellity', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org')) |
- extra_human_genes - Additional human genes that are used in feature extraction
- extra_mouse_genes - Additional mouse genes that are used in feature extraction
- feature_info - Information which genes and GO categories should be included as features. Also defines which features are cell-type independent
- mES1_features - Real test dataset containing all and common features from the paper
- mES1_labels - Real test dataset containing annotation of cells
- param_mES_all - Parameters used for SVM classification
- param_mES_common - Parameters used for SVM classification
- sample_counts - Sample gene expression data containing 40 cells
- sample_stats - Sample read statistics data containing 40 cells
- training_mES_features - Original training dataset containing all and common features from the paper
- training_mES_labels - Original training dataset containing annotation of cells
On BioConductor:cellity-1.33.0(bioc 3.20)cellity-1.32.0(bioc 3.19)
This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.
Last updated 2 months agofrom:9cd74711b3
Exports:assess_cell_quality_PCAassess_cell_quality_SVMextract_featuresnormalise_by_factor
Dependencies:AnnotationDbiaskpassBiobaseBiocGenericsBiostringsbitbit64blobcachemclassclicolorspacecpp11crayoncurlDBIDEoptimRe1071fansifarverfastmapGenomeInfoDbGenomeInfoDbDataggplot2glueGO.dbgraphgtablehttrIRangesisobandjsonliteKEGGRESTlabelinglatticelifecyclemagrittrMASSMatrixmatrixStatsmemoisemgcvmimemunsellmvoutliernlmeopensslorg.Hs.eg.dborg.Mm.eg.dbpillarpkgconfigplogrpngproxyR6RColorBrewerrlangrobustbaseRSQLiteS4VectorsscalessgeostatSparseMsystibbletopGOUCSC.utilsutf8vctrsviridisLitewithrXVectorzlibbioc