Search for clonotypes in external databases
lookup_clonotypes(.data, .db, .seq.col = NA, .v.col = NA, .db.name = NA)
.data | Input dataset. |
---|---|
.db | Either data frame, data table or any other object with columns, or a path to the database file if ".db.name" is provided. |
.seq.col | Name of the CDR3 sequence column in the database. |
.v.col | Provide FALSE to match only by ".seq.col" if ".db.name" is provided. |
.db.name | Either NA or the name of the external database. Provide one of the supported database names to skip specifying column names. Supported databases: - "mcpas" - McPAS-TCR database, http://friedmanlab.weizmann.ac.il/McPAS-TCR/ - "vdjdb" - VDJDB database, https://vdjdb.cdr3.net/search |