OGRDB Updated

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William Lees

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Oct 31, 2019, 9:59:59 AM10/31/19

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This is an occasional mail summarising key changes to OGRDB:

- OGRDB is now accepting V- and J- sequence inferences from the human BCR light and heavy chain. Please keep your submissions coming!

- In a submission, both NIH and ENA accession numbers are now supported. When creating the submission, just select whether it is based on NIH records, or ENA.

- The ogrdbstats script, which is used to create the genotype file for upload with a submission, has been extended to create a range of graphical reports, and tested with all known inference tools.

- When viewed on the Genotype page, inferred alleles may now show annotations in the right-hand column warning of possible problems with the inference. the checks that can currently lead to warnings are listed here: https://github.com/airr-community/ogrdb/issues/57

- Where a sequence has been affirmed as an inferred allele, and is later confirmed by genomic sequencing, the Genbank/ENA acession numberof the confirmation can be added to the record.

- OGRDB now lists 'supporting evidence' of an affirmed sequence, where an inferred allele is observed in an unrelated repertoire submitted to OGRDB, but is not explicitly identified in that latter submission as an inferred allele and hence does not have a Genbank record or a read set associated with it.

In addition, a number of features have been added to support IARC review.

The OGRDB Issues List on Github at https://github.com/airr-community/ogrdb/issues?utf8=%E2%9C%93&q= has a more detailed record of changes.