Related Experiment Video
Updated: Jan 23, 2026

Genomic MRI - a Public Resource for Studying Sequence Patterns within Genomic DNA
Published on: May 9, 2011
Accumulating computational resource usage of genomic data analysis workflow to optimize cloud computing instance
Tazro Ohta1, Tomoya Tanjo2, Osamu Ogasawara3
1Database Center for Life Science, Joint Support-Center for Data Science Research, Research Organization of Information and Systems, Mishima, Shizuoka 411-8540, Japan.
Background:
Container virtualization technologies such as Docker are popular in the bioinformatics domain because they improve the portability and reproducibility of software deployment. Along with software packaged in containers, the standardized workflow descriptors Common Workflow Language (CWL) enable data to be easily analyzed on multiple computing environments. These technologies accelerate the use of on-demand cloud computing platforms, which can be scaled according to the quantity of data. However, to optimize the time and budgetary restraints of cloud usage, users must select a suitable instance type that corresponds to the resource requirements of their workflows.
Results:
We developed CWL-metrics, a utility tool for cwltool (the reference implementation of CWL), to collect runtime metrics of Docker containers and workflow metadata to analyze workflow resource requirements. To demonstrate the use of this tool, we analyzed 7 transcriptome quantification workflows on 6 instance types. The results revealed that choice of instance type can deliver lower financial costs and faster execution times using the required amount of computational resources.
Conclusions:
CWL-metrics can generate a summary of resource requirements for workflow executions, which can help users to optimize their use of cloud computing by selecting appropriate instances. The runtime metrics data generated by CWL-metrics can also help users to share workflows between different workflow management frameworks.
More Related Videos
Related Concept Videos
Computed Tomography
The technique was invented in the 1970s and is based on the principle that as X-rays pass through the body, they are absorbed or reflected at different levels. In the technique, a patient lies on a motorized platform while a computerized axial tomography (CAT) scanner rotates...
Design Example: Traverse Angle Computations
Genomics
Imaging Studies III: Computed Tomography
Area Computation by the Alternative Coordinate Method
The Role of Ion Channels in Neuronal Computation
Sometimes a single EPSP is strong enough to induce an action potential in the postsynaptic neuron. However, multiple presynaptic inputs must often create EPSPs around the same time for the postsynaptic neuron to be sufficiently depolarized to fire an action potential....

