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Computational analysis of single-cell alternative splicing: A dissertation submitted in partial satisfaction of the requirements for the degree Doctor of Philosophy in Bioinformatics and Systems Biology

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UCSD Doctoral Dissertation LaTeX Class

https://github.com/ucsd-thesis/ucsd-thesis

Contents

This folder should contain:

  • template.tex Primary Driver File
  • template_frontmatter.tex Where the title, abstract, etc. are held.
  • ucsd.cls LaTeX class file
  • uct10.clo Font files associated to LaTeX class file
  • uct11.clo
  • uct12.clo

Instructions

Download the files: https://github.com/ucsd-thesis/ucsd-thesis/archive/master.zip

Copy all of the above files to the directory in which you plan to work. Look over template.tex to get started. If you choose to rename the tex files, update the \include{template_frontmatter} line correspondingly.

Latex code can be added directly to template.tex. A common alternate strategy is to include a files for each of the chapters (e.g. chapter1.tex). These can then be included in the main file with the command

\include{chapter1}

For more information go to the project wiki page.

Warnings

This template has not endorced by OGS or any other official entity. The official formatting guide can be obtained from OGS.

No guaranty is made that this LaTeX class conforms to the official UCSD guidelines. Make sure that you check the final document against the Formatting Manual.

That being said, this class has been routinely used for successful publication of doctoral theses.

Let us know if you submit a thesis using this package.

Known Issues

Currently only the 12pt size conforms to the UCSD requirements. The 10pt and 11pt options make the footnote fonts too small.

Help/Contact

If you need help try the ucsd-thesis google group.

Bugs

Please submit bug reports on [github][3]. [3]: https://github.com/ucsd-thesis/ucsd-thesis/issues

Older bug reports can be accessed from [Google Code][4]. [4]: http://code.google.com/p/ucsd-thesis/issues/list

Notes from Daniella/Mike

Also I had to make some minor changes by adding packages to change formatting in the bibliography. Here are the two packages I had to add into the template (to set the spacing and remove the weird url font in the bibliography):

\usepackage{setspace}
\usepackage{url}

Then before the actual bibliography

\urlstyle{same}
\singlespacing

Olga's changes

What I changed from the original ucsd-thesis template.

  • Palatino font instead of default LaTeX font (Computer Modern)
  • BibLaTeX instead of BibTex
  • Add SI units
  • Add personal macros

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Computational analysis of single-cell alternative splicing: A dissertation submitted in partial satisfaction of the requirements for the degree Doctor of Philosophy in Bioinformatics and Systems Biology

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