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Dear Wallace,
A colleague of mine conducted a colocalisation analysis using the coloc.abf() function allowing only 1 causal variant shared between 2 traits. Below is an example script they have use…
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The underlying file types and formats are important for interoperability with data-sources beyond the GWAS community. The paper does not discuss this or any of the selection criteria for the file type…
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Having two separate files seems like a recipe for confusion and error.
1. The metadata isn't like an index file or md5sum that can easily be regenerated if lost, it's inextricably linked to the act…
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The article I came across that utilized MTAG left me feeling very puzzled about whether I used the MTAG is correct.
1. As per my understanding, if I were to employ MTAG to simultaneously input fo…
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Hello,
I saw a few tickets reporting a similar issue when using:
./munge_sumstats.py \
--sumstats UKB.GWAS.txt \
--N 336974 \
--ignore BETA \
--out UKB_DR \
--merge-alleles w_hm3.snplist
…
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Dear SuSiE Team,
Thanks for developing such a fantastic package and for the rigorous statistical work that underpins it.
I have a question about using SuSiE for fine-mapping with GWAS summary s…
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Hello~ We are performing meta-analysis with mtag but get an output file without the N column. Is there any setting we can obtain it? The MTAG codes are listed as follows:
./mtag.py \
--force \
-…
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I just got this running
Note that:
- ABF does not get to if proportion_cases is missinng
- polyfun_susie is missing the environment.
## Code
```
columnsnames = echodata::construct_colmap(m…
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Hi,
thank you for developing such a good tool.
When I created a data frame like pig60K data, I encountered an error:
"Error in CMplot(input2, type = "p", plot.type = "m", LOG10 = TRUE, thresho…
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Hi,
I hope you can help me with these to issues regarding summary statistics imputation:
1) After finishing imputation, we can see that new p-values have been calculated for our input genotypes. …