This is a personal collection of helper functions for single-cell analyses.
It's important to define branch, otherwise the package won't download:
devtools::install_github("rrydbirk/scHelper", ref = "dev", auth_token = )
For working with Conos:
- buildConosGraph
- createEmbeddings
- embedUMAP
- getConditionPerCell
- getConosCluster
- getConosDepth
- mitoFraction
- quickConos
- plotEmbeddingOverview
For working with Pagoda2 web applications:
- addEmbeddingP2Web
- checkDims
For working with annotations (factors):
- collapseAnnotation
- grepl.replace
- renameAnnotation
Miscellanious:
- sortCPDB # Sort CellPhoneDB results
- dotSize # Change ggplot2 geom_point size post definition of plot
- sget # sapply('[[', x) where x is a number
- lget # Same as sget, but lapply
- prepareObjectsForVelocity # Create objects to transfer data from R to Python