Digital imaging of root traits (DIRT): a high-throughput computing and collaboration platform for field-based root phenomics.
Abhiram DasHannah SchneiderJames BurridgeAna Karine Martinez AscanioTobias WojciechowskiChristopher N ToppJonathan P LynchJoshua S WeitzAlexander K BuckschPublished in: Plant methods (2015)
DIRT is an automated high-throughput computing and collaboration platform for field based crop root phenomics. The platform is accessible at http://www.dirt.iplantcollaborative.org/ and hosted on the iPlant cyber-infrastructure using high-throughput grid computing resources of the Texas Advanced Computing Center (TACC). DIRT is a high volume central depository and high-throughput RSA trait computation platform for plant scientists working on crop roots. It enables scientists to store, manage and share crop root images with metadata and compute RSA traits from thousands of images in parallel. It makes high-throughput RSA trait computation available to the community with just a few button clicks. As such it enables plant scientists to spend more time on science rather than on technology. All stored and computed data is easily accessible to the public and broader scientific community. We hope that easy data accessibility will attract new tool developers and spur creative data usage that may even be applied to other fields of science.
Keyphrases
- high throughput
- single cell
- climate change
- genome wide
- healthcare
- electronic health record
- mental health
- deep learning
- public health
- big data
- optical coherence tomography
- high resolution
- data analysis
- gene expression
- dna methylation
- machine learning
- magnetic resonance imaging
- mass spectrometry
- fluorescence imaging
- plant growth