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hello
I noticed that I can't access to https://data.broadinstitute.org/alkesgroup/LDSCORE/.
could you help me?
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Hi there,
I am running mtCOJO analysis using Alzheimer's Disease while conditioning on Small Vessel Disease. I am using LD reference from 1000 Genome reference for EUR population and LD scores and…
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Hi. I'm trying to use LDSC to get heritability estimates for non-European populations. I'm running the following command:
python ~/Programs/ldsc/ldsc.py --h2 $folder.$pheno.sumstats.gz --ref-ld-c…
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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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Hi,I am running mtag using 1trait, i met the following issue:
Trait 1: Dropped 1971 SNPs for duplicate values in the "snp_name" column
Dropped 920120 SNPs due to strand ambiguity, 4996132 SNPs remai…
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Hi,
I have git cloned the MTAG directory and created the conda environment. mtag.py works just fine but both ldsc.py and munge_sumstats.py do not work at all.
python ldsc.py -h throughs at me this …
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Hello, I would like to study the genetic correlations of several diseases in East Asians, and below is the log file. I am wondering why so many SNPs are being excluded due to valid alleles QC. Could y…
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Getting the following error. Any help would be appreciated! Thanks.
* LD Score Regression (LDSC)
* Version 1.0.1
* (C) 2014-2019 Brendan Bulik-Sullivan and Hilary Finucane
* Broad Institute of MIT…
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Call:
./ldsc.py \
--ref-ld-chr /home/huawei/xb/software/ldsc/eur_w_ld_chr \
--out test \
--rg A1.sumstats.gz,phylum.B1.sumstats.gz \
--w-ld-chr /home/huawei/xb/software/ldsc/eur_w_ld_chr
Beg…
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Hello,
I recieved this error message.
How can I solve this problem?
*********************************************************************
* LD Score Regression (LDSC)
* Version 1.0.1
* (C) 201…