verifyAlleleDataset: Verifies the allele entered is present in specified dataset

In SSHAARP: Searching Shared HLA Amino Acid Residue Prevalence

Verifies the allele entered is present in specified dataset

Description

Verifies the allele entered is present in the specified dataset.

Usage

verifyAlleleDataset(allele, filename, alignments)

Arguments

allele	An allele name written in the IPD-IMGT/HLA Database format.
filename	The full file path of the user specified dataset if the user wishes to use their own file, or the pre-bundled Solberg dataset. User provided datasets must be a .dat, .txt, or.csv file, and must conform to the structure and format of the Solberg dataset.
alignments	A list object of sub-lists of data frames of protein alignments for the HLA and HLA-region genes supported in the ANHIG/IMGTHLA GitHub Repository. Alignments will always be the most recent version IPD-IMGT/HLA Database version.

Value

TRUE if the allele is present in the specified data set, and the filtered allele dataset. If a user enters an allele with more than two fields and has selected the Solberg dataset as the data source, a message informing the user that the allele has been truncated is appended to the output. If an allele entered is valid, but is not present in the user provided dataset, a warning message is returned.

Note

For internal SSHAARP use only.

SSHAARP documentation built on June 18, 2025, 1:08 a.m.