LoadRawLR: Load unformatted ligand-receptor database
In BlishLab/scriabin: Single-cell resolved interaction analysis through binning
LoadRawLR R Documentation
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 Sept. 16, 2024, 1:19 a.m.
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| LoadRawLR | R Documentation |
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)
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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