zhanxw

1. Usually rare variant test will use a upper frequency limit. 2. I don't have the reference. Actually, I learned the definition of LOF from my colleagues. Maybe @dajiangliu can...

Hi Jie, I will look into this issue. Our initial goal is to use bgen files as genotype inputs and ped files as phenotype inputs. I will see how to...

The current version of RVTESTS requires that .bgen file includes sample names. In that case a separate .sample file is not be needed. I just learned that many other .bgen...

@jiehuang001 This version (https://github.com/zhanxw/rvtests/releases/tag/v2.0.6) should support BGEN format. Please let me know if you have additional questions. Thanks.

Hi Jie, This is an experimental feature, and we have not thoroughly tested it. We do plan to provide documentation and example datasets. Xiaowei > On Sep 13, 2017, at...

You're right. Since this is an experimental feature, we don't want to waste your efforts. @dajiangliu and I are working on it now, and report back on this issue.

You're right. Can you perform one analysis using gene files and another using the set files?

Hi Jie, This message means that some lines in your VCF file have inconsistent number of columns. For example, Tab "\t" is denoted by "_" P1_P2_P3 0/0_0/1_1/1 0/0__1/1

Thanks for getting back to me. I will check the running time for rvtests.

I will fix that in the next release. Thanks for the report.