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The scripts and steps followed to run susie using in-sample LD on the meta-analysis GWAS results:
- Computing LD and converting to matrix format for running SUSIE (Fri, 23:37, 21-Jun-24).
- Susie…
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There is a bug when I am trying to run mnm_regression.ipynb, which works well at the end of July. I did not see obvious update in recent modification in that pipeline, could be some updates in pecotmr…
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We were recommended to use locus breaker working with MLOG10P in COJO pipe rather than the original one.
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I'm trying to estimate parameters for finemapping and for some reason I the first iteration estimates the gene prior to be zero:
```
ctwas::ctwas_rss(
z_gene = z_gene_subset,
…
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Hello,
Thank you for the fantastic package! I've tried with a VLP16 and it worked in real-time nicely.
However, I am exploring the different parameters available. In particular, can I make the r…
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I can see that the app is using the search api to resolve Finicity institutions but looking at the response I can see that the mapping is off.
Current `finbank` resolve response:
```javascript
{
…
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Dear Team,
I am trying to run the fine-mapping-inf. Thanks for the fantastic software.
I have used the command below to generate LD files.
plink --bfile /gpfs/scratch/najeeb/VCFAfilesAnnotat…
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Since for `susie_rss()` (for GWAS data integration, not for xQTL where we use `susie()`) we decide to use the `polyfun::finemapper.py` wrapper, we can implement the FINEMAP method in it for free (`--m…
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### Are…
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This ticket keeps track of existing eQTL fine mapping methods -- please use new comment for additional references so that I can be notified to add here and to my mendeley:
1. Davis, Joe R., et al.…