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I've followed previous advice of running the single trait MTAG to work out the factor that the MTAG beta's and SE's need to be multiplied by to compare to the GWAS results.
The mean factor (MTAG_beta…
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Hello,
I am interested in the command “--incld_ambig_snps”, when I do not use this command MTAG removes over 600,000 SNPs out of 4,000,000 SNPs. I have tried MTAG both ways (with and without the “…
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We don't yet include MTAG (https://github.com/JonJala/mtag) in our containers, it's handy tool to have.
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Dear professor,
I came across the problem when runing 10 trait, and the err log file was shown as below. I also tried to exlcude all variants containing "AGAAGA" genotype, it stiil gave the same err…
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Steps:
1. install mTags via conda
2. download mTags database
3. run profile
Error message:
2024-02-24 17:35:26,237 INFO: Processed reads: 36000000
Traceback (most recent call last):
File …
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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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Hello,
can MTAGs be used with metatranscriptomic data?
When I tried, I got the following message:
2023-03-10 17:29:08,695 ERROR: Command hmmsearch --cpu 4 -o mtags/clean_21_1_R1_qual.fastq_fw.fasta…
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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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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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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…