December 2010 IDAWG News


Immunogenomics.org Web Domain
We are pleased to announce the new, hopefully easier to recall, home of the IDAWG on the web, immunogenomics.org.

The original igdawg.org domain will not be going away, but we hope that immunogenomics.org will make it easier for the research community to find the IDAWG site.


ANTT Version 0.5.0
We are pleased to announce the release of ANTT version 0.5.0. This release includes software improvements to version 0.4.8, modifications to some log messages, and new settings for control of the information written to log files.

Logging can now be toggled between standard mode (in which only the first instance of an issue is logged) and verbose mode (in which all instances of an issue are logged). Additionally, log entries can now be annotated with the specific cell position of a logged issue (the row and column in your file), or the sample ID associated with each issue (as defined in the left-most 'id' column in your file).

In addition, two new sets of translation tables are included with this version of the ANTT. The antigen recognition sequence (ARS) translation tables will expand so-called g-codes for nomenclature version 2.* allele names that encode the same ARS to slash-delimited strings of version 2.* allele names (e.g., A*0101g will be translated to A*01010101/01010102N/0104N/0122N/0132/0134N/0137).

The complete truncation translation tables include complete allele name truncations (e.g., in addition to A*01010101 and A*01:01:01:01, these tables also include A*01, A*0101, A*010101, and A*01, A*01:01, and A*01:01:01). Where possible, these tables integrate the allele name correspondences in the Nomenclature_2009.txt and Deleted_alleles.txt files available from ftp.ebi.ac.uk, and include translations of deleted nomenclature version 1.* and 2.* allele names to their version 3.* cognates. The use of these complete truncation tables will increase the speed of translation of datasets that include large numbers of right-truncated allele names, at the expense of log messages about truncations. If your dataset includes a large number of truncated allele names about which you are confident, these new tables will result in log files that contain only references to errors.

The ANTT version 0.5.0 package is available for download at www.igdawg.org/software/.