cellCellSetting | R Documentation |
All parameters is saved to metadata slot of SingleCellExperiment object.
cellCellSetting(sce, lrbase, label, lr.evidence="known", color=NULL)
sce |
A object generated by instantization of SingleCellExperiment-class. |
lrbase |
Ligand-Receptor database (LRBase.XXX.eg.db-type package). |
label |
Cellular label information for distingusishing which cells belong to common celltypes. |
lr.evidence |
The evidence code for L-R pair list (Default: "known"). When you specify "known", DLRP, IUPHAR, HPMR, CELLPHONEDB, SINGLECELLSIGNALR are searched, and other databases are searched, when you specify "putative". You can also specify multiple databases at once (e.g. c("SWISSPROT_STRING", "TREMBL_STRING")). cf. https://github.com/rikenbit/lrbase-workflow |
color |
Color scheme for adding color against the cells (Default: NULL). If the value is not specified, automatically the color vector is generated. |
The result is saved to metadata slot of SingleCellExperiment object.
Koki Tsuyuzaki
SingleCellExperiment
.
showMethods("cellCellSetting")
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