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Hi,
I'm looking at the MTAG output file (tutorial_results_1.1NS_trait_1.txt) and I'm wondering how allele frequencies are estimated (rs2736372 , freq = 0.4179).
I suspect that MTAG reports the …
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Hello,
I used MTAG to enhance the GWAS ability. I have phenotypic data of three environments of plant hegiht which has low repeatability. We call the rep_1,rep_2,rep_3. The GWAS signials were unde…
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Assuming proper separation of samples so that no sample information is shared between exposure and outcome instruments, is there any intrinsic problem with using MTAG output summary statistics as inst…
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I get error message "KeyError: u"None of [Int64Index([-2, -2, -2, -2, -2, -2, -2, -2, -2, -1,\n ...\n -1, -2, -2, -2, -2, -2, -2, -2, -2, -2],\n dtype='int64', length=…
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Hi, I'm working on MTAG to combine 4 traits. Inputs are trait_1.txt, trait_2.txt, trait_3.txt and trait_4.txt.
Outputs are MTAG_trait_1.txt , MTAG_trait_2.txt, MTAG_trait_3.txt and MTAG_trait_4.txt.…
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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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Dear Omeed,
I have two phenotypes that are moderately correlated (rho = 0.6). Therefore, I used MTAG to boost the power of my single-GWASs. However, when inspecting the results, I see that some of …
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[SCZ.log](https://github.com/user-attachments/files/16564919/SCZ.log)
When I run the code
`python ${CELLECT_dir}/ldsc/munge_sumstats.py --sumstats ${sumstats_dir}/clozuk_pgc2.meta.sumstats.only_r…
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Hi Everyone,
this is a question rather than an issue;
Can one conduct a meta-analysis of MTAG outputs? Is this viable, or it would be like double-counting (as the SNPs put forward in the met…
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Dear everyone,
When I run the partitioned heritability, there have some errors:
xiangbos-MacBook-Pro:ldsc_mod xiangbo$ python ldsc.py --h2 sleep.sumstats.gz --w-ld-chr /Users/xiangbo/mtag/mtag/lds…