LoadRawLR: Load unformatted ligand-receptor database

In BlishLab/scriabin: Single-cell resolved interaction analysis through binning

Load unformatted ligand-receptor database

Description

Load unformatted ligand-receptor database

Usage

LoadRawLR(species = "human", database = "OmniPath")

Arguments

species

character. Name of species from which to load ligand-receptor databases. One of: "human", "mouse", "rat". Default: "human"

database

Name of ligand-receptor database to use. Default: "OmniPath" When species is "human", one of: OmniPath, CellChatDB, CellPhoneDB, Ramilowski2015, Baccin2019, LRdb, Kirouac2010, ICELLNET, iTALK, EMBRACE, HPMR, Guide2Pharma, connectomeDB2020, talklr, CellTalkDB When species is "mouse" or "rat", only "OmniPath" is supported. To pass a custom ligand-receptor database to this function, set database = "custom"

Value

Returns a dataframe containing full information for the specified LR database. If species==NULL, will return all LR databases in the package. If database==NULL, will return all databases for the given species.

References

Turei, et al. Molecular Systems Biology (2021); Raredon, et al. bioRxiv (2021)

BlishLab/scriabin documentation built on July 5, 2023, 1:14 a.m.