Mark Diekhans
Mark Diekhans
GENCODE human is updated once every 6 months, mouse once every 3 months. RefSeq full releases happen 3-4 times a year. Analysis using to a given version of a gene...
In the world of cancer genomics, BAMs with multiple samples split by read groups is exceedingly rare. While there is are probably good use cases, a good design will be...
This ticket was intended to note something for inclusion in the GA4GH API documentation, which was suppose to be independent of existing file formats. It was noted that it's a...
In BAM, the sample id is associated with the ReadGroup. If the read group has multiple samples, it should have a pool sample id. There isn't a global BAM sample...
Based on my knowledge, I seriously doubt that GRCh38 will be replaced with CHM13. There is still a large amount of work done on GRCh37 and the switch to GRCH38...
@sarahhunt describes search error behavior of Ensemb implementation of API in https://github.com/ga4gh/server/issues/576#issuecomment-132142149 re searching for something that doesn't exist - We're currently returning HTTP/1.0 400 Bad Request and an endpoint...
that is more intuitive!! I would agree that searching within a dataset that doesn't exist is an error, searching for a dataset that doesn't exist seems to be an empty...
Sarah Hunt [email protected] writes: > So is the suggestion GET's on non-existent ids and POST searches within > non-existent sets 404 while bad filters on existing sets silently return empty...
> We do indeed make sure to replace jobs only with renames, > which we depend on being atomic, so I'm not sure hoe the root > job could have...
Lianming Du ***@***.***> writes: > You don't have to manually close pyfastx.Fasta. It will be closed automatically. Automatically when it is garbage collected?? Yes, this happens with python files as...