Cavatica is an integrated bioinformatics research platform with compute, storage, and file metadata tagging all in one place.
Cavatica was launched in 2016 as a partnership between the Center for Data Driven Discovery in Biomedicine (D3b) at the Children’s Hospital of Philadelphia (CHOP), Seven Bridges, the Children’s Brain Tumor Tissue Consortium (CBTTC) and the Pacific Pediatric Neuro-Oncology Consortium (PNOC). Since then, it has expanded to being a collaborative platform for a number of initiatives, including the Gabriella Miller Kids First Data Resource Center (KFDRC).
AWS compute is leveraged allowing for high-throughput analysis, while workflows written in common workflow language (CWL) with docker to maximize portability and reusability. Additionally, via Cavatica’s Data Cruncher, analyses using various open-source R and Python packages can be shared through Jupyter Notebook. The KFDRC has used this platform to harmonize and process over 15,000 whole genomes, whole exomes, and RNA-seq, including alignment, somatic variant calling, copy number calls, structural variants, RNA expression and fusions.
In partnership with the Australian BioCommons, ARDC, and the Children’s Cancer Institute, D3b have been working to expand Cavatica to AWS Sydney and piloting new capabilities to support Australian initiatives such as Zero Childhood Cancer. This workshop will provide an overview of how to use Cavatica to create tools for data analysis and sharing, and to access and leverage existing production workflows.
The workshop in Sydney will be presented by the Center for Data Driven Discovery in Biomedicine, Children’s Hospital of Philadelphia Research Institute and is primarily targeted at participants from the Zero Childhood Cancer Initiative, ARDC, Children’s Cancer Institute Australia and Australian BioCommons.
Presenters: Center for Data Driven Discovery in Biomedicine (D3b) at the Children's Hospital of Philadelphia
Date/time: 4 Feb 2020 - 14:00-17:00 AEDT / 13:00-16:00 AEST
Please contact christina@biocommons.org.au if you would like to be considered for participation.