SNP2HLA 1.0.3

SNP2HLA is a tool to impute amino acid polymorphisms and single nucleotide polymorphisms in human luekocyte antigenes (HLA) within the major histocompatibility complex (MHC) region in chromosome 6.

Accessing the software

To load the module:

$ module load SNP2HLA/1.0.3

This application comes packaged as 3 sub-components:

  1. SNP2HLA : HLA imputation software
  2. MakeReference : Software used to build a reference dataset for HLA imputation
  3. Pan-Asian : A pre-built reference dataset based on the data of pan-Asian subjects. These are 530 individuals that are all pan-Asian population.

To use, a command would be:

$ SNP2HLA.csh 1958BC HM_CEU_REF 1958BC_IMPUTED plink

Accessing Previous Versions

Wherever possible, previous versions of this application will be retained for continuity, especially for research projects that require a consistent version of the software throughout the project. Such versions, however, may be unsupported by IT Services or the applications vendor, and may be withdrawn at short or no notice if they can no longer run on the cluster - for example, essential operating system upgrades may be incompatible with old versions.

At present there are no previous versions of this application on the BlueBEAR service.

Known Problems & Limitations


Other Information

The Support Level for this application is An.

Visit the SNP2HLA website for more information regarding this application.

Last modified: 14 December 2018