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WurksNotebooksFinal

Demo given Jan. 14th 2019 at Plant and Animal Genome conference in San Diego

using jupyter notebooks and nbgrader to partially automate exercise grading for the course geoengineering, and the design of a proposal for a final exam for the course geoengineering

The code for discovering novel gcGC's in publicly available genomes can be found here.

Reinforcement Learning agent that uses sarsa q learning algorithm to learn how to optimize greenhouse management.

This is an adaptation of CloudSPAdes which uses taxonomical annotation of reads additionally to linked reads.

Spark standalone clusters on SLURM

Geometricus represents protein structures by shape-mers derived from 3D moment invariants - https://github.com/TurtleTools/geometricus

Contains Instructions how to set up iRODS for sysadmins and training material for different user goups.