If you happen to see a question you know the answer to, please do chime in and help your fellow community members. We encourage our fourm members to be more involved, jump in and help out your fellow researchers with their questions. GATK forum is a community forum and helping each other with using GATK tools and research is the cornerstone of our success as a genomics research community.We appreciate your help!
Test-drive the GATK tools and Best Practices pipelines on Terra
Check out this blog post to learn how you can get started with GATK and try out the pipelines in preconfigured workspaces (with a user-friendly interface!) without having to install anything.
GATK 3.8 with MTBseq
I am trying to use GATK with MTBseq and it states that you have to use v3.8 which cannot be installed by conda. I have installed using the following
"conda install -c conda-forge -c bioconda gatk"
Then I downloaded the tar file from your website and used
to copy to the conda bath but the command doesn't work. I am a microbiologist so i am not very command line savvy and not sure what I am doing wrong. Any help would be great!