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The models are easily and quickly fitted within the R environment, using existing packages.
Each task of the workflow in Fig. 5 was performed from R scripts based on existing packages.
While originally intended for low-dimensional applications, the algorithms work in any dimension and our key routine for vertex and facet enumeration compares well with existing packages.
The authors have developed their own software which has advantages over existing packages when examining penalised objective functions with very large peaks.
All the existing packages are designed for helically symmetric specimens, and do not allow analysis of asymmetric helical objects, such as microtubules with seams.
The goal of this course is provide the students with sufficient background to understand and evaluate commercial or third-party software, write small programs to help integrate existing packages, and create scripts to automate work flows.
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CEO of Professional Science Editing for Scientists @ prosciediting.com