added link in exercises to NJplot "how to" page, and added a learning objective to the "from initial question to answer" section
added link to original PLoS Pathogen page for north african rabies paper
changed some use of bold to italics in the document, so that these paragraphs look less like headings
fixed the link to the phylip-format alignment file based on webPRANK alignment used in "conceptual" exercise with rabies sequences (it previously pointed to the PhyML output file for this analysis rather than the alignment)
edited "using phyml" file to get bullets shown properly
added links to tree visualisation software for conceptual demonstration
fixed a named anchor link that was wrongly written as =name"" rather than name=""
changed jModelTest screenshots to jpg from tiff as Firefox was not showing the tiffs, but does show the jpgs
adding the new jpg versions of the jModelTest screenshots
edited the "pragmatic" exercise description to be inline with the names given to the different phases of the analysis in the presentation and exercise
adjusted formating of "pragmatic" exercise formatting to get the bullet point indentation and paragraphing right
added sequence file that had forgotten to copy over, containing the the trimmed-down set of LA gastroenterologist  sequences used in the "advanced" exercise
added correct link to RAxML website i.e. of Alexis's Exelixis lab page
corrected link to clann website