#FISH546 - Bioinformatics for Environmental Sciences Winter 2015

This repository serves as the primary framework for the course. Specifically please see the wiki for syllabus, content, etc. Issues will be used as primary means of assessment and communication.

Course Description- This course will teach core computing skills as well as project specific approaches. Each student will be developing and completing a research project targeting journal article submission by the end of the Quarter. There will be an emphasis on developing habits that increase automation which in turn will facilitate reproducibility. The course primary course platform will be GitHub, with each student creating their own repository.

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The code repository is where example analyses will be provided. 👍

###Files and Directory Structure

CONTRIBUTING.MD- This is simply for the guidelines for contributing to this repository you will see when creating a new issue.

.gitignore - List of files that are in local repo but not in GitHub because of file size limits

notebooks/ - Directory where IPython notebooks live.
Notebooks rendered in nbviewer: http://nbviewer.ipython.org/github/sr320/fish546-2015/tree/master/notebooks/

data/ - Raw data including fasta files (in data/fa/)

analyses/ - Output from analyses performed in IPython notebooks.

scripts/ - Scripts call on from notebooks.