mixer

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Hi, Can the p-values for the variant overlap region be obtained from the Venn diagram for two tested traits? I'm asking because I'm trying to determine the likelihood of the...

ruthchia

Hi, Is there a function in MiXeR that could output the list of SNPs that are unique to trait1, trait 2 and shared between two traits? Could you please provide...

changxuling

try to fit `fit1` model, be killed

1

Hi, Guys, I got a `killed` massage when I ran: `python3 /precimed/mixer.py fit1 \ --trait1-file SSGAC_EDU_2018_no23andMe_noMHC.csv.gz \ --out SSGAC_EDU_2018_no23andMe_noMHC.fit.rep${SLURM_ARRAY_TASK_ID} \ --extract LDSR/1000G_EUR_Phase3_plink/1000G.EUR.QC.prune_maf0p05_rand2M_r2p8.rep${SLURM_ARRAY_TASK_ID}.snps \ --bim-file LDSR/1000G_EUR_Phase3_plink/[email protected] \ --ld-file LDSR/1000G_EUR_Phase3_plink/[email protected] \ --lib...

llalluan

Install Mixer failed

1

Hi I used cmake .. -DBOOST_ROOT=mixer/boost_1_68_0 && make bgmg -j16, then occured many errors there, I don't know why ,I will appreciate if you give me a favor, thanks 

shenlan17

Dear Oleksandr, I am using mixer to investigate the polygenic overlap between three traits. (trait1 and trait2; trait1 and trait3). I ran the analysis successfully, but the results is a...

chenyangjjj

I get this error: INFO:root:log_message(*********************************************************************** * mixer.py: Univariate and Bivariate Causal Mixture for GWAS * Version 1.2.0 * (c) 2016-2020 Oleksandr Frei, Alexey A. Shadrin, Dominic Holland * Norwegian Centre...

prabhjyotsaini

Hello, I am using linux aarch64 architecture. I create a virtual environment using miniconda3 in the linux. When I use CDLL(lib_path), I got the following error: The script is ```...

Charxil

Standard errors were larger than effective numbers

2

I followed the tutorial from the README page and got the results with no error. However, the Venn plot showed that the standard error is larger than effective numbers. How...

wuyong0103

Aborted (core dumped)

1

Hello, **trying to run mixer; I get a nice message :-(** Call: ./mixer.py fit1 \ --out SSGAC_EDU_2018_no23andMe_noMHC.fit.rep1 \ --lib /home/GENOME/mixer/src/build/lib/libbgmg.so \ --bim-file /scratch/GENOME/containers/reference/ldsc/1000G_EUR_Phase3_plink/[email protected] \ --ld-file /scratch/GENOME/containers/reference/ldsc/1000G_EUR_Phase3_plink/[email protected] \ --trait1-file SSGAC_EDU_2018_no23andMe_noMHC.csv.gz \...

humanpaingeneticslab

Hi，I was wondering if the gene file could be processed as a whole, instead of being divided into 22 chromosomes. Thanks for your help.

ThisHq