Ryangguk Kim

Ok. Meanwhile, OpenCRAVAT team will discuss the possibility of applying a unified process on all resources for consistency. If this strelka, octopus, and ClinVar case is solved within OpenCRAVAT, I'll...

@EugeneEA Hi, yes there is a plan to add the support for SV, CNV, etc. in the future. Can be in this repo or a fork.

@EugeneEA I would like to start discussion on it. Can you let me know what kind of output columns you would need? Something like the following? ``` +-------+-----------+-----+-----------+-------------------------------------------------------------------------------------+ | chrom...

@EugeneEA Thanks. Below is a sketch. The current format of `all_mappings` is difficult to parse, sort, and filter. Thus, using putting each transcript in a separate line, something like: ```...

@EugeneEA Yes, if the variants are in ClinVar as well as any other OpenCRAVAT, they will be annotated. I am not sure yet about how imprecise variants are treated in...

The current OpenCravat software architecture relies on fetching pre-computed annotations one variant at a time. FDR calculations depend on the entire user-submitted data in a run, so it cannot be...

OpenCRAVAT does not have such a feature, but it may be possible to implement it. Do you mean something like this?: Open a job result viewer -> load a bam...

Thanks for the detailed explanation. OC currently does not have that feature, but that may be possible. We'll discuss and let you know in this thread.

Thanks for letting us know. We did notice that ClinVar had some latin characters, which was taken care of in the past, but we will investigate and post any update...

@jkobject Can you check `oc module ls` and see if `hg19` module exists in your system? `encode_tfbs` runs and needs the output of `hg19` module and it seems that `hg19`...