CalEpletMHCII

Use high resolution HLA(Human Leukocyte Antigen) class II data to calculate class II eplet mismatch for a population of donors and recipients. Mismatch is calculated using logic from 'HLAMatchMaker', developed by Rene Dusquesnoy. Current reference tables supported are 'HLAMatchMaker' v2 and v3. Note: interlocus info only available in v3 reference tables.

A streamlined tool for eplet analysis of donor and recipient HLA (human leukocyte antigen) mismatch. Messy, low-resolution HLA typing data is cleaned, and imputed to high-resolution using the NMDP (National Marrow Donor Program) haplotype reference database <https://haplostats.org/haplostats>. High resolution data is analyzed for overall or single antigen eplet mismatch using a reference table (currently supporting 'HLAMatchMaker' <http://www.epitopes.net> versions 2 and 3). Data can enter or exit the workflow at different points depending on the user's aims and initial data quality.

Joan Zhang

hlaR

Tools for HLA Data

Aileen Johnson

Christian P Larsen

CalEpletMHCII function

<dl><dt>dat_in</dt>
<dd>A dataframe of recipient and donor's high resolution MHC II data. Each recipient and donor pair are linked by are the “pair_id” column and differentiated by the “subject_type” column.</dd>
<dt>ver</dt>
<dd>Version number of HLAMatchMaker based eplet reference table to use.</dd></dl>

Arguments

Calculate class II HLA eplet mismatch. — CalEpletMHCII

<dl>

<dt>dat_in</dt>
<dd>A dataframe of recipient and donor's high resolution MHC II data. Each recipient and donor pair are linked by are the “pair_id” column and differentiated by the “subject_type” column.</dd>


<dt>ver</dt>
<dd>Version number of HLAMatchMaker based eplet reference table to use.</dd>

</dl>

CalEpletMHCII: Calculate class II HLA eplet mismatch.

Description

Usage

Value

Arguments

Examples