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- Could we put a summary of the different tables in the left-hand box, almost like a table of contents? This would give an easier way to see what types of information on the page, and it could also p…
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When submitting jobs using TensorQTL.ipynb, there is either KeyError or ValueError. I changed the following indices
pairs_df.columns.values[7] = "pvalue"
pairs_df.columns.values[8…
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Hi,
I found that the `outFilterMultimapNmax` is set to 20 in STAR alignments. I could not find anywhere in the code that only uniquely mapped reads are considered for downstream analysis of splicin…
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https://mp.weixin.qq.com/s/cE-KIGB07kk4nnveXyZ96Q
ixxmu updated
5 months ago
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## Background
The current interpretation of splicing QTL (sQTL) beta coefficients for the direction of effect assessment is not informative, where negative are interpreted as loss of function and p…
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# Background
For context, GWAS studies have a unique `study_id` for each analysis. In cases like the UKBB or GWAS catalogue studies with multiple GWASes, the ID is amended with an integer capturing…
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Hi, @almeidasilvaf
My data here does not have phenotypic data, but I have heard of sQTL. Is it possible to use Alternate splicing as a phenotype here?
But there is a problem here, when correlatin…
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Based on the discussion under #3282 and #3283, the parser to generate disease target evidence from Genetics Portal data needs to be updated with the following things:
- [x] From QTL integration exc…
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https://mp.weixin.qq.com/s/bSSjtFiZJWv_x1f2Cp7-_w
ixxmu updated
7 months ago
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Hi,
I want to reproduce the result of LDL in the cTWAS paper following https://github.com/xinhe-lab/ctwas-paper/blob/main/application/LDL/run_LDL.R. However, I'm encountering some unclear issues.
…