RHEO becomes more flexible and robust

For an improved experience of creating code packages and running automations in RHEO, we have introduced several improvements that are already live and ready to be used:

• When creating code packages, you can now select which Python version to use in order to maintain reproducibility, but also benefit from the features available in more recent Python versions. The available options are Python 3.6, 3.7 and 3.8, with 3.8 being the default version if this parameter is not specified.
• The new AWS execution mode enables automation runs directly on AWS Fargate instances instead of using the available RHEO execution infrastructure. AWS execution mode is activated using a dedicated configuration parameter.
• Improved stability and monitoring of automation runs executed both on the RHEO execution infrastructure and AWS Fargate.

Recently published apps

We published the following tools from the STAARpipeline 0.9.6 and FAVORannotator 1.0.0 toolkits:

• STAARpipeline tool, which performs phenotype-genotype association analyses using the STAAR procedure. The app is designed for analyzing whole-genome/whole-exome sequencing data.
• STAARpipelineSummary VarSet tool, which summarizes results from the STAAR procedure for analyzing WGS and WES data.
• STAARpipelineSummary IndVar tool, which extracts information of individual variants from a user-specified variant set.
• FAVORannotator tool which functionally annotates genotype data in GDS format using the FAVOR Database. The resulting file can then facilitate a wide range of functionally-informed downstream analyses, for example, phenotype-genotype association analyses using the STAARpipeline toolkit.

Marko Marinkovic