Table of Contents
Style guide
Center all tables and images. Image centering is built-in functionality when inserting; tables use the <columns> tag as part of the Columns plugin.
Genesplugin-autotooltip__default plugin-autotooltip_bigGene: read Chapters 02, 03, 04, 05, and 06 for a definition of gene :-) and geneplugin-autotooltip__default plugin-autotooltip_bigGene: read Chapters 02, 03, 04, 05, and 06 for a definition of gene :-) symbols should use $\LaTeX$ formatting: e.g., $URA3$ or $unc\text{-117}$. In retrospect this was not a great idea because autolink 4 does not recognize $\LaTeX$ formatted text. It does make genesplugin-autotooltip__default plugin-autotooltip_bigGene: read Chapters 02, 03, 04, 05, and 06 for a definition of gene :-) stand out, so there is that.
Chapter numbers should use two-digit format (e.g., Chapter 01).
The Captions plugin does not support equation numbering, so genetic crosses and other equation-like objects should be labeled as <figure>
Technical notes
Note that the LaTeX syntax using the MathJax plugin does NOT work in footnotes. (2024-08-18) It does, however, work in headers, which is weird because headers are not supposed to support any kind of formatting.
Use <columns 100% *100%*></columns> to center tables - <div centeralign> works for images but not tables. Function of the Columns plugin.
JaxMath understands \text{} syntax from the amsmath package for LaTeX.
The Comment Syntax plugin allows for comments using the \* this is a comment *\ format.
using the nowiki tag or % delimiters does NOT work for the MathJax plugin. Instead, use /$
{{anchor:anchor_name}} is used to generate anchor links. Use [[page_name#anchor_name|text]] to link to it.
~~NOTOC~~ suppresses display of table of contents for each page.
Using autotooltips and autolink 4 plugins for glossary. basically: glossary entries go into the “glossary:” name space. Simply use [[glossary:page_name_goes_here|link text goes here]] to generate the glossary entry page. The first lineplugin-autotooltip__default plugin-autotooltip_bigStrain or line: refers to a pool or colony of individuals or cultured cells of a desired genotype or phenotype that is mostly homogeneous and can be bred and/or produced in perpetuity for research or commercial purposes. “Strain” tends to be used more for microorganisms and of the glossary entry should be a one lineplugin-autotooltip__default plugin-autotooltip_bigStrain or line: refers to a pool or colony of individuals or cultured cells of a desired genotype or phenotype that is mostly homogeneous and can be bred and/or produced in perpetuity for research or commercial purposes. “Strain” tends to be used more for microorganisms and summary for the tooltip, can add other content below if needed. IN the autolink plugin config page, need to add an entry, see examples therein.
To-do list
see if can host MathJax locally instead of relying on remote service. Note: tried this on 08/25/2024 - it does not look easy. sticking with the remote call for now.
More of a wishlist item: add a section on human/medically relevant pop-gen. OCW has a decent set of notes for this, should not be too hard to expand. (Part 4: Population genetics?)
Also a wishlist item: a chapter on epigenetics. Not part of OCW notes. (Part 5: Weird stuff we don't fully understand yet?)
Add appendix B: basically the lab manual.