Minor formatting updates

[agchesebro]

Collection of minor things I've noticed (will append to list as I continue looking at the website):

• Short website name (shown on tab view) still says "Franklin Example | Vela" and the non-Neuroblox logo
• Menu name of website is "Vela Template"
• Circuit Models in the menu is "Circuit Modelis"
• PING network structure image isn't shown (just ?)
• Under "Introduction to Julia" it lists a bunch of resources as "prerequisites", which sounds like they should read all of these resources, is this intentional? Maybe it should just be called "Resources"?
• PING tutorial HH equation is set as code rather than rendered LaTeX
• PING tutorial markdown is behaving weirdly - subsection headers like "Define the neurons" and "Alternative graph creation" are not bold and just plain text
• Citations in tutorials without bulleted lists are not separated (numbered lists are rendered as a single paragraph).
• In the Circuit Models Introduction page, both of the links to the tutorials are 404
• In the spDCM tutorial, the challenge problems have titles but these aren't bolded so they just look like incomplete sentences.
• spDCM figures need to be fixed to render on website
• semicolons for code suppression
• in "Biomimetic model...." page the t_stimulus and t_pause in the exercises are rendered as italics and no underline so it's messing with the formatting
• in "Biomimetic model...." Exercise has two colons after it.
• in "Introduction to Julia" the links to the outside course are plain text, not hyperlinks (first block only, main links work).

[sbrincat]

Note: I don't have write access to to Anthony's issue, so I am adding my typos/formatting comments here. Feel free to cut and paste them into the main issue if you want.

• Link in “Plotting with Makie: Challenge problems” is 404
• In “Blox and Connections in Neuroblox: Custom Connections” – typo: variery → variety
• In “Blox and Connections in Neuroblox: Connection callbacks” – typos: Currenlty → Currently; affect → effect?
• In “Neurons, Neural Masses and Sources: Neurons and neural masses” – typo: Exhitatation → Excitation; ‘int he’ → ‘in the’
• In “Neurons, Neural Masses and Sources: Sources” – typo: ‘as a particular Blox subtype’ → ‘are a particular Blox subtype’; shiften → shifted
• Typos in “Circuit Models in Neuroblox”: in text and code ‘WinnerTakesAllBlox’ should be ‘WinnerTakeAllBlox’
• Even with typo fix above, code still throws error: UndefKeywordError: keyword argument name not assigned
• In "PING": 'Reasons for each non-Neuroblox package are given in the comments' – these are actually not given
• In “Decisions”: Populations A and B are reversed in my output (and the text matches my plots, rather than the plots in the tutorial)
• In “Decisions”: Plot title "Competing Firing Rates" isn’t showing up
• In “Synaptic Plasticity”: Plot titles are not showing up
• In “Inverse problems”: typo: ‘optimizatoin’ should be ‘optimization’

[sbrincat]

Since this issue is still open, I will just add additional minor comments that arose from the course here...

• In "Intro to Julia", cells 80-81 (h.(x)) seem to be a repeat of 78
• In "Intro to Diff Eq", the 1st plot outputs twice, in cells 14 and 15
• In "Intro to Plotting", cells starting with “for i in eachindex(t_range[1:end-1])” don’t output any plot (need fig call)- - [ ] In "NB blox & connections", typo: ‘genric’ should be ‘generic’
• In "Neurons & neural masses", could we label axes on the plots, so people know what they are?
• In "Neurons & neural masses", the first cell in “Event-based spike sources” produced a bunch of warnings…then didn’t the second time I called it(?)

• In "Neurons & neural masses", would’ve been nice to have some brief intro to LIF vs Izh neurons, what their different parameters reflect
• In "Corticostriatal model", typo: ‘strutures’ should be ‘structures’
• In "Corticostriatal model", typo ‘number if WTA circuits’ should be ‘number of WTA circuits’
• In "Corticostriatal model", could we explain what I_bg is supposed to represent?
• In "DCM", typo: ‘euqations’ should be ‘equations’
• In "DCM", could we recode ecbarplot() to plot ground truth values in different color, in case they ever do overlap with the posterior bars