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CBS >> CBS Prediction Servers >> MHCcluster-2.0 >> Instructions

Usage Instructions

The submission screen can be split in the following three parts:

  1. Adjust prediction settings.
  2. Choose MHC alleles to compare (choose at least 3 alleles).
  3. Upload your own MHC alleles (optional) *.
* Note: Be patient with new MHC uploads. Computing prediction models for new alleles is computational exhaustive, thus significantly prolonging the computation time.

Adjusting Prediction Settings

In the prediction settings part the user can:

  1. Adjust the amount of peptides to include.
  2. Adjust the amount of bootstrap calculations.
  3. Adjust the fraction of peptides to use in the correlation analysis.
Adjusting Prediction Settings


 

Choose MHC Alleles

In the MHC allele lists part the user can:

  1. Set the class type (MHC class I or MHC class II).
  2. Switch between allele sets.
  3. Pick specific alleles from the list, or select all alleles in the set.
  4. Manually add or remove chosen alleles.
  5. Upload a file containing the allele names
  6. See a list of all available alleles.
Choose MHC Alleles


 

New MHC Alleles

In the new MHC alleles part the user can paste or upload full length MHC protein sequences in fasta format. *
This option enables the user to compare new MHC alleles against the known MHC alleles.

* Note: Be patient. Computing prediction models for new alleles is computational exhaustive, thus significantly prolonging the computation time.
New MHC Alleles

 

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This file was last modified Saturday 6th 2013f July 2013 15:50:54 GMT