index.mdwn

[[!meta title="Open questions"]]

UI

Browser

• What are the limits to rendering in the browser?
  • number of nodes in a graph
  • fidelity of PDF rendering (for display and printing)
• Can DOM nodes be cloned by the browser engine and rendered in a new window?
  • inspired by: http://insitu.lri.fr/metisse/

Desktop

• How difficult is it to make changes to the UI when developing on the desktop?

• How can the application be distributed on multiple platforms easily?

  • Make an installer for each platform
    • More info in the orbital-transfer project wiki.

Mobile

• Where will the documents be stored?

• How to reduce and measure energy consumption?

• How to reduce and measure data consumption?

  • https://developer.android.com/training/basics/network-ops/managing

e-ink

• How to manage UI in the absence of window manager?
  • SDL
  • Tcl/Tk
  • [[Immediate mode GUI|https://en.wikipedia.org/wiki/Immediate_mode_GUI]]
  • [[EFL|https://www.enlightenment.org/about-efl.md]]

Text-based and command line

• What would it take to build a system for reading on the terminal?

  • Support converting to [[HTML|feature/file-format/html]] and reading in lynx/elinks (either static files or serve over HTTP).
  • Support converting to [[Info file format|feature/file-format/info]].

• How can it be integrated with a user's editor (such as Vim, Emacs, Notepad++).

  • Vim and Emacs have built-in documentation support.
    • Vim: https://www.vim.org/docs.php
    • Emacs: https://www.emacswiki.org/emacs/InfoMode

Text-to-speech

• How to translate document structure into speech? Related to [[feature/speech-synthesis]]
  • Mathematical equations
    • https://tex.stackexchange.com/questions/37640/are-there-good-resources-for-converting-tex-type-files-to-spoken-word
    • https://github.com/tvraman/aster-math
      • http://emacspeak.sourceforge.net/raman/aster/aster-toplevel.html
    • https://mathjax.github.io/MathJax-demos-web/speech-generator/convert-with-speech.html
    • other way: https://tex.stackexchange.com/questions/153129/what-research-exists-on-speech-to-latex-mathml
  • Block quotes
  • Citations
  • Footnotes/endnotes
    • https://support.microsoft.com/en-us/office/use-a-screen-reader-to-read-and-edit-footnotes-and-endnotes-in-word-71427011-d8ad-4f5a-8ddc-f3b8718c3446
  • Abbreviations
  • Table of contents
  • Figure captions
  • Tables
    • extract table labels
    • also useful for fixed/sticky table headers such as in HTML with position: sticky pattern:
      • https://css-tricks.com/position-sticky-2/,
      • https://orangeable.com/css/fixed-table-headers,
      • https://developer.mozilla.org/en-US/docs/Web/CSS/Layout_cookbook/Sticky_footers.
  • Index
  • Glossary

Metacognition

Discussion of metacognitive strategies that could have computer aides.

• During writing, indicators for reading level, sentiment analysis, use of metaphor:
  • https://en.wikipedia.org/wiki/Readability
    • algorithm: readability metrics
    • possible use: prompt reader to rewrite an idea using their own simpler language to show they understand
  • https://en.wikipedia.org/wiki/Sentiment_analysis
    • possible use: during conversations, use this to avoid "heated" language or filter out "heated" conversations. Relatedly: http://cognitionandculture.net/blogs/hugo-mercier/why-assholes-are-more-likely-to-be-wrong/.
  • https://en.wikipedia.org/wiki/Politics_and_the_English_Language
    • algorithm: etymology?
      • http://etym.org/
• Discuss phenomenon in terms of statistical distributions:
  • Make note of how frequent a phenomenon occurs. A particular phenomenon could be important in terms of its effects, but rare. For example, a [[disulfide bridge (SS bond)|https://en.wikipedia.org/wiki/Disulfide]] between cysteine (Cys) amino acids is important for the stability of proteins, but per analysis of a H. sapiens proteome DB in [[Cysteines and Disulfide Bonds as Structure-Forming Units: Insights From Different Domains of Life and the Potential for Characterization by NMR|https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7191308/]], Cys is found in 97% of proteins, but disulfide bonds are only marked in 18% of proteins, but there is also another effect of protein length that is correlated with the presence of a disulfide bond. Further information on this:
    • [[Frequency of cysteine residue in proteins - Human Homo sapiens - BNID 103538|https://bionumbers.hms.harvard.edu/bionumber.aspx?s=n&v=2&id=103538]]
    • [[Fraction of protein cysteines engaged in disu - Human Homo sapiens - BNID 103536|https://bionumbers.hms.harvard.edu/bionumber.aspx?s=n&v=3&id=103536]]
    • [[Occurrence of protein disulfide bonds in different domains of life: a comparison of proteins from the Protein Data Bank - Protein Engineering, Design and Selection - Oxford Academic|https://academic.oup.com/peds/article/27/3/65/1518881]]
  • Tools
    • Bayesian / Graphical models
      • https://mc-stan.org/
      • https://github.com/pgmpy/pgmpy
      • https://www.cs.ubc.ca/~murphyk/Bayes/bnintro.html
      • https://stats.stackexchange.com/questions/16750/software-for-drawing-bayesian-networks-graphical-models
      • https://mcmc-jags.sourceforge.io/
      • https://www.mrc-bsu.cam.ac.uk/software/bugs/
      • https://www.quora.com/Are-there-any-tools-that-will-take-a-graphical-model-specified-in-the-BUGS-language-and-output-a-visualization-of-that-graphical-model?share=1
      • https://cran.r-project.org/web/views/gR.html
  • Types of data
    • Spatial
      • e.g., often when discussing a phenomenon in social science, that phenomenon may be mistakenly either localised (only focused on a particular place) or universalised (assumed to exist the same way everywhere). It is important to know where it occurs to avoid parochialism.
    • Temporal
• Sourcing
  • Primary source, secondary source, etc.
    • Summaries are not the same as the primary source.
    • There have been cases where false information spreads because nobody looks up the original source or the author uses an invalid source:
      • the diagrams that show different locations on the tongue having different tastebuds
      • a journal article that cited a children's novel about Marie Antoinette https://twitter.com/invitinghistory/status/1441080706344443918, https://vivelareine.tumblr.com/post/663173336356061184
      • this thread shows step-by-step how to source historical data https://twitter.com/rauchway/status/1167142811952566272
      • there are often cases where somebody cites an article to prove a point, but then you follow the citation and neither the methods or discussion can be used to make the point that the citation makes
      • other times people cite a work without reading it. For highly cited works ("the classics"), this can lead to a misunderstanding of the intellectual history in a field, e.g., https://twitter.com/gabriel_mathy/status/1452815294204874753
      • https://twitter.com/infotranecon/status/1452339829656604672, https://twitter.com/Scholars_Stage/status/1447744949747953669
• Thinking routines
  • https://www.theconsortiumforpubliceducation.org/resource/project-based-learning-resources-pbl/research/
  • http://www.pz.harvard.edu/thinking-routines
  • https://www.sadlier.com/school/ela-blog/think-puzzle-explore-visible-thinking-routine-a-professional-development-series
  • https://thinkingpathwayz.weebly.com/thinkingroutines.html
• Be clear about definitions
  • e.g., economic variables such as productivity can vary in definition based on if you are working in micro- or macro- contexts.
  • e.g., GDP is not always computed directly from national income data, but in some cases may be partially imputed.
  • e.g., explain how life expectancy is computed.