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Hi, there:
I am trying to run "tabix my.GWAS.gz" file. my.GWAS.gz file is tab delimited and it has columns such as CHR POS SNP REF ALT BETA SE P N. However, I got the error messages of "[E::get_i…
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Hello,
I ran the --blup option and I obtained a Beta for each trait that I used in the meta-analysis.
Is there another option to compute also the SE?
Also my understanding from some of the previ…
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Currently, we don't have start/end in the mapping file. This isn't a problem for 1bp-wide features like SNPs (in the strict sense of the term), but if you include indels/structural variants you can ha…
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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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Hi all,
This is a great tool, and I'm a big fan of the GWAS Catalog. This issue regards some simple but critical changes to the documentation for non-Python users. I'll preface this by saying I consi…
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compilation output:
g++ -DHAVE_CONFIG_H -I. -DUNIX -I/share/disk6-2/leihx/sunjy/software/boost-1.45.0/include -DHAVE__BOOL -D__NOPLUGIN__ -fopenmp -O3 -MT encore.o -MD -MP -MF .deps/encore.Tpo …
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While exploring the results in the echolocatoR Shiny app, I noticed that FINEMAP never returns more than 1 credible set per locus. This was confusing since SuSiE often returns more than 1 credible set…
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HI,
I am having this issue running eQTL.Catalogue.query. I thought It could be somehow related with tabix, so I updated the yaml file. I removed tabix, and added htslib to solve the environment aga…
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Hi,
As can be derived from my previous 'issue', I am fairly new to the HASE framework. Therefore more problems are likely to have been caused by my lack of experience. However, I would be very grat…