Michael Dondrup comments

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                                            Michael Dondrup

How to search for Tripal Content?

It is possible to define a simple View for tripal content. However, the fields are seemingly not searchable. If I enter Contains: PAU8, nothing comes up, but if I select...

Sequence Field infers sequence based on location

Hi, I have written and tested some code for doing the sequence extraction and prototyped a Drupal module in order not to interfere with the Tripal codebase for now. It...

Any advice on how to create a haplotype-resolved assembly form the phase FastQ reads

Dear Omar, Thank you very much for all the suggestions. I ran the cleaning step with an extra --fillGaps 1. This reduced the number of clusters to 80 or exactly...

nphase takes a long time at GATK step

Sorry for the delay in my response. I was investigating whether I could use the precomputed VCF files. However, I noticed some differences in the workflow which may make recomputing...

nphase takes a long time at GATK step

After some more attempts to debug this, I conclude that this is in part a technical problem of GATK and the /tmp directory setup on that specific machine [(an issue...