rvtests
rvtests copied to clipboard
zhanxw
Rare variant test software for next generation sequencing data
Hi ! when running rvtests --single wald with UK biobank bgen files as input and binary oucomes, I am getting results that differ completely from other GWAS tools that allow...
Hi, I'm new to RVTest and genetics, so if this is something simple I apologize in advance. I am trying to run a conditional analysis with one SNP as the...
Hi, i converted the UKB chr22 BGEN file to VCF format using PLINK2. I first used PLINK to run association analysis on these two input files to make sure that...
1. In the example folder of rvtest package, you did not specify --freqUpper 0.05 in cmd.sh. Here is the example code. If I use --freqUpper 0.05 in the same command,...
Dear Xiaowei, for the GIANT/GLC project I have been running all my analysis using rvtest Program version: 20170307. Somehow all of them produce the same log file where an error...
Hello, I have been playing around with the rvtests docker container for a couple of days and things have been running smoothly, thanks for the nice utility! Yesterday I attempted...
I have encountered a problem when running a recessive analysis with files in the bgen format, I am running the following script, which takes a chromosome, start and end position...
Dear Xiaowei, thank you for developing rvtests. I am using your tool and have realized that from version 20160504 on the allele frequencies reported and the INFORMATIVE_ALT_AC column do not...
Sorry, didn't test it thoroughly , but it just "feels" slower, maybe you know the reason? (If not I can create reproducible example.) I tried standard file as input: `--geneFile...
installation : error message: ``` /usr/include/c++/5/backward/binders.h:108:11: note: declared here class binder1st ^ ConjugateGradientSolver.cpp: In function 'int conjugateEigen(const MatrixXf&, const MatrixXf&, double, Eigen::MatrixXf*)': ConjugateGradientSolver.cpp:72:3: error: 'ConjugateGradient' is not a member of...
