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From @lgruen (just creating a placeholder issue):
It might be worth trying to update the IGV.js version. If I understand correctly, the currently used version is 2.2.2 (https://github.com/populatio…
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I remember some discussion of default query parameters we should use for querying. I remember there was one in particular that was almost required for Seqr but that information seems to be lost. I wan…
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@anneodonnell commented on [Wed Jun 26 2019](https://github.com/broadinstitute/seqr/issues/924)
pext scores are Beryl's transcript aware expression score. I was hoping it could be added to the in sil…
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Somewhat related project using Solr:
code here: http://sourceforge.net/projects/seqcrawler/
Paper: http://www.biomedcentral.com/1471-2105/13/175
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From Lewis:
> There are a couple of approaches to DNA searching we could take with SEQR. One is to do a translating blastx type search that takes a DNA sequence, converts it to 6 possible protein se…
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Combined ES + GS data/ short and longreads in a single project
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We can imagine that someone (say, me) wants to dump their existing blast database (say nr/nt) into something Seqr-compatible.
blastdbcmd can dump FASTA entries like so:
```
>gi|66816243|ref|XP_64213…
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In [`4eebe29`](https://github.com/ccmbioinfo/status/commit/4eebe291f32000c2e2b7d42ab24ea8ffa26a16b9
), Seqr (https://seqr.ccm.sickkids.ca) was **down**:
- HTTP code: 0
- Response time: 0 ms
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The logic to start server (running `make`) could happen in `.travis.yml` or within a robot test.
This will add some time to the tests as it takes some time to download solr, I don't think that we wi…
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pext scores are Beryl's transcript aware expression score. I was hoping it could be added to the in silico list. We use it in the opposite way from most scores - we use the score to downweight variant…