Kath ✭

Hi, I notice from a recent paper on allele-specific expression that GATK are releasing a new walker (ASEReadCounter) with version 3.4. I am teaching a course including some allele-specific expression… (View Post)

I am using the latest version of snpEff and using -o gatk doesn't seem to work for me. The resulting vcf is not compatible with GATK VariantAnnotator. Here are the commands: java -jar snpEff.jar eff … (View Post)

Hi, I am adapting a two-year old pipeline, which includes UnifiedGenotyper to call variants. I would like to update this to the HaplotypeCaller. In the command for the UnifiedGenotyper there is an op… (View Post)