Help

The purpose of this website is to provide essential information,
to build lineage trees of haplotype inheritance from HLA typing of family members,
and impute simultaneously the 5 locus haplotypes of all family members using the typing and the self reported population.

The website receives as input the HLA typing of relatives in a nuclear family (parents and children),
and calculates the parent's haplotypes. This information is then used to compute the descendant's haplotypes.

Input

Single or several families, with HLA typing for each family member.
The input can be provided in two ways:

1. csv file, which includes data of a single family or several families. If your data contains several families, this is the recommended option.
   For an example of a valid format, see "Example" label.
   The CSV is limited at the current time to 100 families.
2. Manual insertion in the website template.
   In this case, the insertion is for a single family at a time.

Output

After processing (which takes about a minute),
the output downloads to the computer as a zip directory, which contains these files:

1. "results.csv": parent's haplotypes for each family that passed the process successfully.
   Each row is a possible result (max of 100 results for each family).
   If a family has several results, they will appear in descending probability order.
   In addition, in each row, the inheritance (of the children) are described.
2. ".png" files: visualizations of the results: 5 file (or less, if there are less families in the data) for the first 5 families.
   The name of the file is the "FAMCODE" (index) of the family. (e.g. "1.png", "2.png"..)
   If a family has several results, there is a visualization to the first result only.
3. ".pdf" files: just like the ".png" file, in ".pdf" format. (e.g. "1.pdf", "2.pdf"..)
4. "errors.txt": specifies families, that did not pass the process successfully, because one of the following reasons:
   Invalid data, or data that does not compatible for the process.
   Another reason to errors can be results that inconsistent with the whole family.
   In fact, the main reason for that is recombination.
   The file describes the failure reason for each family.
5. In case of manual insertion, the zip contains the file: "user data in gl format.csv".
   This file includes the HLA data that the user submitted, in valid file format,
   so the user can use it for easy re-submission (by "Insertion by File").
   It can be useful when the user have to correct a mistake in the data:
   Instead of insert all the data manually, again, it can be fixed in file.