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Hello,
With an sQTL dataset of ~260k phenotypes and ~8M variants we are running into convergence issues during calculations of cis-permutations. The permutations appear to run and yield a count of QT…
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Of the ~60m rows in the `v2d_credset` data, an estimated ~21m records are not able to be displayed in the front-end due to an API/data bug.
The `v2d_credset` contains a field `phenotype_id` which …
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```
/home/hs3163//sQTL_data_intergration.21.yml False False
Total number of sumstats: 1
{'/home/hs3163//sqtl_chr21.txt': {'ID': 'GENE,CHR,POS,A0,A1', 'CHR': 'chrom', 'POS': 'pos', 'SNP': 'variant_…
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Hi
Thank you for your tool. It is very helpful for us.
But I have a question about it.
1) my GWAS had SNP CHR BP A1 A2 BETA SE P MAF,after munging the data P is not in the data, and result of fin…
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This issue is to report that the Automat metadata for several sources within the ROBOKOP KG is incomplete (e.g., missing URLs). Moreover, it's missing the metadata (e.g., missing URL) for ROBOKOP KG i…
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As a developer/owner, I should pin down the best way to integrate and display to the users the new splice QTL datasets into the Genetics Portal.
The sQTLs contribute to the new V2G pipeline.
- [ ] B…
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I have some questions regarding the upcoming release —
### Priority
- Is there an interesting sQTL that I could feature in the blog post?
- Can you give me some examples of new studies with s…
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As gtex have already implement a way to conduct [sQTL analysis](https://github.com/broadinstitute/gtex-pipeline/tree/master/qtl/leafcutter) via tensorQTL and leafcutter.
We can piped what we curre…
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Dear Team,
I am wondering whether INDEL, CNV and Structural Variation are included in eQTL and sQTL analysis? or only SNPs are included?
Thanks.
Shicheng
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**Script used:**
### Residual Expression: sQTL
```
sos run /restricted/projectnb/casa/xqtl-pipeline/pipeline/covariate_formatting.ipynb compute_residual \
--cwd /restricted/projectnb/c…