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Hi, guys:
I have two fundamental question on colocalization.
1. Below is the **Figure 1** of the original coloc paper. So, only P-value is considered for the bayesian test, not BETA and Varia…
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Hi all,
I am planning to use Coloc for identifying shared genetic signals for two EQTL-GWAS studies.
Given that the reference genome used in EQTL data is GRCh38, while many GWAS data use GRCh37…
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In load-explore-data.Rmd, create a figure showing the relationship between the expression matrix, the sample metadata, and gene annotation. This will be three rectangles with dimensions that match up …
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I had couple of quick questions.
I found a word doc tutorial from you which mentions which files to use as eQTL input.
In your document, you mention that there are two files in the .
But I found t…
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Aim here is to understand overall structure of qtls more generally.
possible plots/ analyses include:
- sfa analysis of posterior effect sizes. Then examination/plots of specific factors to see what…
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Thank you for developing the TORUS algorithm. I am trying to investigate the enrichment of H3K27ac signals in liver tissue within its eQTL data.
The screenshot below shows the commands I used for pe…
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We can compute the posterior summaries Ab for any matrix A, but this is not well documented.
Here was a user request (by email)
we have a situation with stimulated and unstimulated cells. We've ma…
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There seem to be an error in the create.eQTL.summary script with the following error message:
Error in .Call2("solve_user_SEW0", start, end, width, PACKAGE = "IRanges") :
solving row 147: range c…
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I used tensorQTL 1.0.7 to run cis-eQTL, and my BED file wasn’t sorted. However, in version 1.0.8, the BED file must be sorted; otherwise, it gives an error saying, “Positions in BED file must be sorte…
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Hi,
First of all, I want to commend you on creating an impressive tool—great work! I have a few comments and questions that I hope can help clarify some aspects:
1. MAF vs. EAF in GWAS Datasets…