1. 12 Sep, 2018 1 commit
    • Mohammad Akhlaghi's avatar
      Added two MOOCs on reproducible science · 2cb27f33
      Mohammad Akhlaghi authored
      Alice Allen and David Valls-Gabaud introduced me to these two MOOCs
      (the INRIA one isn't actually done yet, but I guess once its finished,
      the full course will remain on the webpage).
      2cb27f33
  2. 05 Sep, 2018 1 commit
    • Mohammad Akhlaghi's avatar
      Research compendium concept discussed in reproducible science page · dc68f336
      Mohammad Akhlaghi authored
      Vicky Steeves recently introduced me to the concept of "Research
      compendia" (originally introduced by Gentleman and Temple Lang
      2004). So a link to that work and some related works (in
      `research-compendium.science') was added along with a discussion at
      the end of the "Implementation" section on the difference of this
      implementation with Rearch compendia.
      dc68f336
  3. 03 Sep, 2018 1 commit
    • Mohammad Akhlaghi's avatar
      Added several links to Reproducible science page · 20349c37
      Mohammad Akhlaghi authored
      Alice Allen introduced me to an interesting article that came out in
      Physics today. It was a wonderful example of the importance of
      reproducibility in order to understand the methods and thus the
      results. In the comments to that paper, I also came up with a recent
      paper by Konrad Hinsen (whose papers I had read from +2 years ago),
      which I also added. He had also mentioned an early paper (from 1969)
      on this issue. A link to all these papers is now added.
      20349c37
  4. 24 Aug, 2018 1 commit
    • Mohammad Akhlaghi's avatar
      Added link to ASU library's open science page · 9a81766b
      Mohammad Akhlaghi authored
      David Valls-Gabaud kindly introduced me to the ASU Library's open
      science page which contains many useful links regarding reproducible
      science. To allow links to similar pages, an "Other related pages"
      section was added.
      9a81766b
  5. 23 Aug, 2018 1 commit
    • Mohammad Akhlaghi's avatar
      New data aquisition section to reproducible science page · 84d770e3
      Mohammad Akhlaghi authored
      This week's Nature had several nice articles on reproducibility, so I
      had the chance to add some interesting points to the reproducible
      science page.
      
      The main thing was adding a discussion on reproducibile data
      aquisition, with a link to `protocol.io' which helps in this
      step. Also, in Nature's toolkit section, there was a nice general
      discussion on how to make your work reproducible, so I added that link
      to the similar attempts section.
      84d770e3
  6. 06 Aug, 2018 1 commit
  7. 02 Aug, 2018 2 commits
  8. 28 Jul, 2018 1 commit
    • Mohammad Akhlaghi's avatar
      Added Kulkarni et al 2018 to reproducible papers · 811f4b7a
      Mohammad Akhlaghi authored
      While reviewing yesterday's list of arXiv papers, I noticed the paper
      by Kulkarni et al. (arXiv: 1807.09774), where they had put all the
      code to derive their results in a Git repository and put a link to it
      in the arXiv comments.
      811f4b7a
  9. 24 Jul, 2018 1 commit
    • Mohammad Akhlaghi's avatar
      Added new National Academies report on Open Science · 7db8ef00
      Mohammad Akhlaghi authored
      The National academies of sciences, engineering and medicine recently
      published a very complete report regarding "Open science". So a link
      was added within the description of the reproducible science page.
      
      David Valls-Gabaud kindly informed me about this report.
      7db8ef00
  10. 25 Jun, 2018 4 commits
  11. 16 Jun, 2018 1 commit
    • Mohammad Akhlaghi's avatar
      Critical article on exames added to suggested readings · feda63e9
      Mohammad Akhlaghi authored
      I saw this nice article by Simon Jenkins in the Guardian today
      regarding a criticim of exams and in particular maths exams. I
      mentions some points really nicely, so I thought it would be good to
      have it in the collection of suggested readings.
      feda63e9
  12. 06 Jun, 2018 2 commits
    • Mohammad Akhlaghi's avatar
      Minor spell check and edit in last commit · 4ed92d55
      Mohammad Akhlaghi authored
      I found a few typos and made the text more clear in the
      "Non-reproducible papers" section of `reproducible-science.html'.
      4ed92d55
    • Mohammad Akhlaghi's avatar
      Nice analogy and non-reproducible papers added to discussion · b1456383
      Mohammad Akhlaghi authored
      A nice analogy with the quality of English language in journals was
      added to the `reproducible-science.html' page. Also, Peter Mitchell
      kindly pointed me to an interesting non-reproducible paper he found
      today in Nature. So To make such cases also clear (how many people
      strongly resist an open view to science), I also added a list of such
      cases to this page.
      b1456383
  13. 17 May, 2018 1 commit
    • Mohammad Akhlaghi's avatar
      Nature's how to build a healthy lab collection in suggested readings · b2e38134
      Mohammad Akhlaghi authored
      The collection of articles in Nature this week on "How to build a
      healthy lab" were very interesting for me, so I thought of adding them
      in the suggested reading. They also had some nice pictures, so I also
      added three of the nice ones under the description (copied from the
      small version of the images).
      b2e38134
  14. 28 Apr, 2018 1 commit
  15. 04 Apr, 2018 1 commit
  16. 14 Mar, 2018 1 commit
  17. 09 Mar, 2018 1 commit
  18. 08 Mar, 2018 1 commit
    • Mohammad Akhlaghi's avatar
      Added Nature's new policy regarding software · 5d14c332
      Mohammad Akhlaghi authored
      In this week's edition of Nature, I saw their announcement on their
      new policy towards software and code in the papers they publish. This
      was exciting news, so I added it to the page describing the approach
      to reproducible science.
      5d14c332
  19. 01 Mar, 2018 1 commit
  20. 28 Feb, 2018 1 commit
    • Mohammad Akhlaghi's avatar
      Added an article on science and the reformation · 66f0c726
      Mohammad Akhlaghi authored
      I saw this article in the October 26th edition of Nature and thought
      it would be good to review it in the suggested readings. Although as
      is clear from my review, I am critical to many aspects of it, I found
      the evidence that was provided at the start more interesting and
      thought it is also necessary to discuss articles I don't agree with
      (and why).
      66f0c726
  21. 21 Feb, 2018 1 commit
  22. 19 Feb, 2018 1 commit
  23. 18 Feb, 2018 1 commit
  24. 17 Feb, 2018 4 commits
    • Mohammad Akhlaghi's avatar
      Fixed quotations in review of suggested reading · 6c516a83
      Mohammad Akhlaghi authored
      Copying from the original text, there were double-quotations within
      another double-quotation. So the internal ones are now single quotes
      and also in two cases of copying the text from the webpage, a
      non-ASCII character was used for the apostophe. A single quote is now
      used for them instead.
      6c516a83
    • Mohammad Akhlaghi's avatar
      Minor edit to the description of latest suggested reading · 907b131c
      Mohammad Akhlaghi authored
      I made the text a little more clear and easy to read.
      907b131c
    • Mohammad Akhlaghi's avatar
      Commented extra paragraph on exact quotes from the new paper · c4cbd1c8
      Mohammad Akhlaghi authored
      The discussion on "The tyranny of convenience" in the suggested
      readings page had a large paragraph containing many nice quotes. But
      they just made the description too long. So for now, I have commented
      that second paragraph out so it won't be visible in the browswers, but
      still present here incase I want them later.
      c4cbd1c8
    • Mohammad Akhlaghi's avatar
      New article added in suggested readings · 5c1e4bf3
      Mohammad Akhlaghi authored
      While looking over the New York Times today, I came across the "The
      Tyranny of Convenience" article that really intrigued me, so I added
      it to my list of suggested readings. I also generally went over the
      whole page and made the HTML formatting more clean and added the dates
      of the articles to the title while also moving the name of the
      journal/webpage to the end of the title.
      
      Also, I put the link to the Git history of the webpage at the start of
      the box in the top webpage and removed the "Click here" part.
      5c1e4bf3
  25. 15 Feb, 2018 2 commits
  26. 12 Feb, 2018 1 commit
    • Mohammad Akhlaghi's avatar
      A link to the slides added in text of index.html · 4234655d
      Mohammad Akhlaghi authored
      To be found more easily from the top of the page, I added a short line
      to the last paragraph describing reproducible research that contains a
      direct link to the slides I had prepared on reproducible science.
      
      A small spell-check was also applied on `index.html'.
      4234655d
  27. 10 Feb, 2018 1 commit
    • Mohammad Akhlaghi's avatar
      Some slides added to help demonstrate reproduction pipeline · 00f1add4
      Mohammad Akhlaghi authored
      I ended my talk yesterday at the CRAL Seminar with a short set of
      slides to discuss the proposed reproduction pipeline strategy. So I
      brought them out into a separate set of slides and made it a little
      more clear to upload to the webpage and supplement the discussion on
      the reproducible science page.
      00f1add4
  28. 08 Feb, 2018 1 commit
  29. 06 Feb, 2018 2 commits
  30. 05 Feb, 2018 1 commit