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Currently it is difficult to extract the top results from a large eQTL object. The print gives the list, but e.g. the top-x genes or all genes with x sig results should be easier to extract.
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Dear @sunway1999 @pllittle @liusi2019
Thanks for your beautiful codes and the CSeQTL paper!
I want to run some example data to make sure that I can use CSeQTL correctly.(PS. our lab own CMC and…
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INFO - Unexpected error: DataFrame.drop() takes from 1 to 2 positional arguments but 3 were given
my command: "python3 SPrediXcan.py --model_db_path GTEx_V1_Liver_mRNA_ElasticNet_model_filtered_sig…
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Example of prompt based simulation code engineering
- What if there are dependencies of effects between traits? What about residual covariances?
- Enrichment based simulation: If a variant is a…
gaow updated
11 months ago
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Can these scripts be added to this repo? https://github.com/NikVetr/MoTrPAC_Complex_Traits/blob/main/fig1b_integration-with-metaanalysis.R#L26
```r
#load de data
source(file = "~/scripts/montgomery…
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Hi,
Would it be a problem for mash if different covariates or different numbers of covariates were used in the condition-by-condition analyses?
For example, in an eQTL scenario where different n…
ghost updated
2 years ago
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Dear Liu Lab
Thank you for developing this outstanding software and providing it to use.
I believe this will contribute significantly to the advancement of TWAS
Additionally, it may be extremely us…
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Here the idea is to do analogues of the previous issues, but based on raw expression, not eQTLs.
Kushal has already done a bunch of this - eg the structure analysis and clustering of tissues
he prese…
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Hi
I noticed you chose to normalize intron usage of one sample by RINT cross all intron rather than normalize one intron cross all samples as GTEx eQTL did, I really don’t understand the reason for…
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hi, thank you for your wonderful method!
i have problems when using MR-JTI to interpret my GWAS results.
problem 1:
do i need to run JTI methd before runing MR-JTI?
if not, how can i get the e…