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