View source for BCH2024-2012

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Exploratory Data Analysis using R
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This is the 2012 BCH2024 course on  '''Exploratory data analysis using R''' taught by [mailto:boris.steipe@utoronto.ca Boris Steipe] at the University of Toronto.


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==Organization==
All sessions will take place in '''MSB 3290'''.


Meeting times are:
* Thursday, Aug. 23 14:00-16:00
* Friday,   Aug. 24 14:00-16:00
* Tuesday,  Aug. 28 10:00-12:00
* Thursday, Aug. 30 14:00-16:00  


In addition to the course sessions, there are a number of lab modules for you to work through at home.


Auditors are welcome '''IF''' they commit to participating actively in all sessions.


Grading will be 50% course participation and 50% mini project.


Course participation is:
* Being prepared for and actively participating in class.
* Contributing to e-mail discussion of questions arising from the course material or the lab modules.


The mini project comprises:
* Search for an '''R''' package that implements an analysis relevant to EDA in the scope your thesis project. Alternatively you can come up with a creative, interesting use of the default '''R''' functionality in script form, or as a function that you write.
* Summarize what you plan to do, eMail me your proposal and have me sign off on the suitability of the proposal.
* Develop a script that guides a user through installation of the package (or defines your function) and executes a typical use case. Don't forget to include a sample dataset. Make sure your script is extensively annotated with comments and that you include notes on the interpretation of results.
* Submit your script and sample data to me no later than Friday morning, Aug. 31.
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==Links and Material==
*The course [[R tutorial]]

Lecture slides
* [http://biochemistry.utoronto.ca/steipe/abc/CourseMaterials/R_Module_4_Regression.pdf Module 4 - Regression (PDF, 1.9 MB)]
* [http://biochemistry.utoronto.ca/steipe/abc/CourseMaterials/R_Module_5_HypothesisTesting.pdf Module 5 - Hypothesis Testing (PDF, 2.2 MB)]


'''R''' scripts for ...
* ... [http://biochemistry.utoronto.ca/steipe/abc/CourseMaterials/Module_1.R Module 1 (Landscape)]
* ... [http://biochemistry.utoronto.ca/steipe/abc/CourseMaterials/Module_2.R Module 2 and 3 (EDA, Plotting)]
* ... [http://biochemistry.utoronto.ca/steipe/abc/CourseMaterials/Module_4_Regression.R Module 4 (Regression)]
* ... [http://biochemistry.utoronto.ca/steipe/abc/CourseMaterials/Module_5_HypothesisTesting.R Module 5 (Hypothesis Testing)]

Data sets:
* [http://biochemistry.utoronto.ca/steipe/abc/CourseMaterials/GvHD.txt GvHD.txt (Graft vs. Host Disease, cell-sorter)]
* [http://biochemistry.utoronto.ca/steipe/abc/CourseMaterials/ hiv.raw.data.24h.txt]
* [http://biochemistry.utoronto.ca/steipe/abc/CourseMaterials/ logcho_237_4class.txt]




&nbsp;&nbsp;&nbsp;{{WP|R_(programming_language)|'''R''' on Wikipedia}}
<div class="reference-box">[http://cran.r-project.org/doc/manuals/R-intro.html Introduction to '''R''' at CRAN]</div>


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