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.
Haplotype caller for RNA-seq
I have been running HP for my RNA-seq data
java -Xmx16g -jar GenomeAnalysisTK.jar \
-T HaplotypeCaller \
-R $ref \
-I INPUT.bam \
-stand_call_conf 50.0 \
-stand_emit_conf 10.0 \
my process is killed when it was 82% completed. Is there a way to resume the run without running from the beginning ?
T. Hamdi Kitapci