Dear all, I just learned that our resource allocation request on the NSF's XSEDE HPC infrastructure to create a science gateway for 3D quantitative phenotyping is approved. When implemented, this will be a cloud platform where registered users can upload their imaging datasets and use the provided R and associated mesh/image analysis on the virtual HPC cluster. In addition, we will also make the ANTs diffeomorphic deformable image registration library and its R package available on this gateway. Provided tools will enable generation of a population template from a set of volumetric images [1-2]. Average anatomical templates (or atlases) provide a least-biased coordinate system to study structure-function relationships [3]. They operate as a reference frame for understanding the variation in anatomy, and as a probabilistic space into which structural features are mapped. In more practical terms, templates can aid in the automated or semi-automated segmentation of complex morphology [4], or landmarking [5-6]. Our goals is to facilitate morphometric analysis of large structural datasets using open standards and analytical pipeline. I expect the gateway in its rough form will be available by fall of this year. This year we have enough allocations to process about ~1000 medium resolution (i.e. 512^3 voxels or less) dataset. If you are interested, please get in touch with me at m...@uw.edu<mailto:m...@uw.edu>. I am particularly interested in hearing from developmental biologist or people working on model organisms. M [1] For volumetric dataset https://www.ncbi.nlm.nih.gov/pubmed/28656622 [2] For mesh based dataset https://www.ncbi.nlm.nih.gov/pubmed/29080945 [3] https://www.ncbi.nlm.nih.gov/pubmed/15501083 [4] https://www.ncbi.nlm.nih.gov/pubmed/24850858 [5] https://www.ncbi.nlm.nih.gov/pubmed/26628903 [6] https://www.ncbi.nlm.nih.gov/pubmed/26120349
-- MORPHMET may be accessed via its webpage at http://www.morphometrics.org --- You received this message because you are subscribed to the Google Groups "MORPHMET" group. To unsubscribe from this group and stop receiving emails from it, send an email to morphmet+unsubscr...@morphometrics.org.
