Network Enabled Research - The role of open source and open thinking

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Keynote talk given at the Bioinformatics Open Source Conference at the ISMB in Berlin on 19 July 2013. Discussed from the perspective of Open Source and open definitions how to think about networks and the potential for discontinuities and phase transitions as places where the expansion of networks can lead to significant changes in scientific capacity.

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Network Enabled Research - The role of open source and open thinking

  1. 1. http://www.flickr.com/photos/small_realm/6898449633 CC BY Network Ready Research The role of Open Source and Open Thinking BOSC - Berlin - 19 July 2013 Cameron Neylon
  2. 2. You are free to: Copy, share, adapt, or re-mix; Photograph, film, or broadcast; Blog, live-blog, or post video of; This presentation. Provided that: You attribute the work to its author and respect the rights and licenses associated with its components.
  3. 3. Networks.
  4. 4. Torres-Sosa et al, doi:10.1371/journal.pcbi.1002669 Waters et al, doi:10.1371/journal.pone.0040337 http://bit.ly/bosc-cn-fig1 http://bit.ly/bosc-cn-fig2
  5. 5. Torres-Sosa et al, doi:10.1371/journal.pcbi.1002669 Waters et al, doi:10.1371/journal.pone.0040337 http://bit.ly/bosc-cn-fig1 http://bit.ly/bosc-cn-fig2
  6. 6. Torres-Sosa et al, doi:10.1371/journal.pcbi.1002669 Waters et al, doi:10.1371/journal.pone.0040337 http://bit.ly/bosc-cn-fig1 http://bit.ly/bosc-cn-fig2
  7. 7. http://commons.wikimedia.org/wiki/File:Arpanet_logical_map,_march_1977.png
  8. 8. http://commons.wikimedia.org/wiki/ File:Map_Showing_the_Telegraph_Lines_In_Operation,_Under_Contract,_and_Contemplated_to_Complete_the_C ircuit_of_the_Globe,_1869.jpg
  9. 9. http://commons.wikimedia.org/wiki/File:Post_und_Reisecarte_der_Wege_durch_Frankreich_1703.PNG
  10. 10. http://mentionmapp.com
  11. 11. Many networks
  12. 12. http://www.flickr.com/photos/47691521@N07/6082519811/ CC BY-SA What can we...
  13. 13. Here’s another...
  14. 14. 27 January 2009 http://gowers.wordpress.com/
  15. 15. 27 January 2009 February 1 2009 http://gowers.wordpress.com/
  16. 16. “It is not the case that the aim of the project is [...to solve the problem...] I think that the chances of success even for this more modest aim are substantially less than 100%.” Tim Gowers http://gowers.wordpress.com/2009/02/01/a-combinatorial-approach-to-density-hales-jewett/
  17. 17. 27 January 2009 February 1 2009 March 10 2009 http://gowers.wordpress.com/
  18. 18. “It feels as though this is to normal research as driving is to pushing a car.” Tim Gowers http://gowers.wordpress.com/2009/02/01/questions-of-procedure/#comment-1701
  19. 19. Successful open projects...
  20. 20. ...exploit order-disorder transitions
  21. 21. ...or...
  22. 22. ...network transitions can be exploited...
  23. 23. ...by adopting open approaches
  24. 24. “Open” is What about anyway?
  25. 25. http://www.flickr.com/photos/tawheedmanzoor/2309847575 CC BY
  26. 26. “Open” does What mean?
  27. 27. http://www.flickr.com/photos/yourdon/3088582622 ...sharing what we already create
  28. 28. The license must not restrict anyone from making use of the program in a specific field of endeavor. Open Source Definition - http://opensource.org/osd The license must not discriminate against any person or group of persons.. Open Definition - http://opendefinition.org/okd
  29. 29. By Open Access we mean...permitting any users to read, download, copy, distribute, print, search, or link to the full texts of these articles, crawl them for indexing, pass them as data to software, or use them for any other lawful purpose, without financial, legal, or technical barriers other than those inseparable from gaining access to the internet itself. Budapest Open Access Initiative http://www.budapestopenaccessinitiative.org/read
  30. 30. http://www.flickr.com/photos/mrsdkrebs/6522929727 CC BY
  31. 31. http://www.flickr.com/photos/leesean/5114553800 CC BY-SA For any
  32. 32. http://www.flickr.com/photos/fontplaydotcom/2636754594 CC BY
  33. 33. “Open” does being What mean?
  34. 34. My work can help someone... http://www.flickr.com/photos/mararie/3313582639/ CC-BY-SA
  35. 35. P = Interest Friction x N(help someone)
  36. 36. P = Interest Friction x N(help someone) Proportion that could use your work Usability of your work Number of people you can reach
  37. 37. Someone out there can help... http://www.flickr.com/photos/mararie/3313582639/ CC-BY-SA
  38. 38. P = Interest Friction x N(getting help)
  39. 39. P = Interest Friction x N(getting help) Proportion that create work that you can use Ease of contributing Number of people you can reach
  40. 40. P = Interest Friction x N(getting help) Fixed
  41. 41. P = Interest Friction x N(getting help) As small as possible...
  42. 42. P = Interest Friction x N(getting help) As small as possible... As large as possible...
  43. 43. Being open is acting to reduce friction and to maximize N...
  44. 44. ...for both outgoing and incoming information...
  45. 45. http://www.flickr.com/photos/nanagyei/6744708487 CC BY Enable forking..
  46. 46. http://www.flickr.com/photos/dno1967b/8531643597 CC BY ...and merging
  47. 47. What tools...? http://www.flickr.com/photos/booleansplit/3055314411 CC BY
  48. 48. Repositories...
  49. 49. ...documentation.
  50. 50. ...VMs...
  51. 51. ...continuous integration...
  52. 52. ...unit tests...
  53. 53. ...issue trackers...
  54. 54. ...cloud.
  55. 55. http://www.flickr.com/photos/drachmann/327122302 CC-BY-SA
  56. 56. http://www.flickr.com/photos/robbie73/3387189144 CC-BY-SA
  57. 57. http://www.flickr.com/photos/mukumbura/4052671706 CC-BY-SA
  58. 58. http://www.software.ac.uk/blog/2013-07-09-recomputation-manifesto
  59. 59. http://ivory.idyll.org/blog/vms-considered-harmful.html
  60. 60. http://www.flickr.com/photos/marfis75/2459534903 CC BY-SA Different audiences...
  61. 61. http://www.flickr.com/photos/pagedooley/5000489105 CC BY Different audiences...
  62. 62. http://www.flickr.com/photos/9610484@N05/1120115961 ...different supports.
  63. 63. http://www.flickr.com/photos/soldiersmediacenter/4311667534 CC BY ...different supports.
  64. 64. http://www.flickr.com/photos/celebdu/291322346 CC BY But how do you support the unexpected...?
  65. 65. http://www.flickr.com/photos/drachmann/327122302 CC-BY-SA
  66. 66. http://www.flickr.com/photos/robbie73/3387189144 CC-BY-SA
  67. 67. http://www.flickr.com/photos/mukumbura/4052671706 CC-BY-SA
  68. 68. If it’s near zero cost...
  69. 69. http://www.flickr.com/photos/gaelx/6340466785 CC BY-SA ...and reduces
  70. 70. ...or increases http://www.flickr.com/photos/jennycu/4527765710 CC BY
  71. 71. ...then do it.
  72. 72. If it costs...
  73. 73. http://www.flickr.com/photos/pagedooley/5000489105 CC BY ...but helps a known audience
  74. 74. http://www.flickr.com/photos/gaelx/6340466785 CC BY-SA ...and reduces
  75. 75. ...or increases http://www.flickr.com/photos/jennycu/4527765710 CC BY
  76. 76. ...for all...
  77. 77. ...then do it.
  78. 78. Can move it upstream... http://flickr.com/photos/jason_burmeister/2053139930 CC-BY
  79. 79. ...use shared platforms http://www.flickr.com/photos/37984062@N03/3495256118 CC-BY-SA
  80. 80. http://www.flickr.com/photos/mdpettitt/3455884055 CC-BY ...share the load
  81. 81. ...then...
  82. 82. http://www.flickr.com/photos/mecklenburg/5026128169 CC BY-SA Something is missing....
  83. 83. http://www.flickr.com/photos/beccapeterson/5338013478 CC BY-ND
  84. 84. No-one ever got...
  85. 85. http://www.flickr.com/photos/natematias/310642831 CC-BY-SA one of these...
  86. 86. ...for infrastructure
  87. 87. http://www.flickr.com/photos/joshwept/5689555989/ CC BY
  88. 88. Hack the incentives system...?
  89. 89. More of the same...?
  90. 90. http://www.flickr.com/photos/levork/5026708729 CC BY-SA
  91. 91. http://www.flickr.com/photos/yakobusan/2436481628 CC-BY Community architecture...
  92. 92. ...open in the foundations http://www.flickr.com/photos/56380734@N05/7852142720 CC-BY-SA
  93. 93. Reduce friction... http://www.flickr.com/photos/g_kat26/3535474947 CC-BY-SA
  94. 94. ...and support sharing... http://www.flickr.com/photos/cogdog/5910598311 CC BY-SA
  95. 95. http://www.flickr.com/photos/dno1967b/6295812307 CC BY ...but also merging
  96. 96. Where are the opportunities?
  97. 97. Points of nucleation? http://www.flickr.com/photos/vitroids/1527109907 CC BY
  98. 98. Where are we close to a phase transition? http://www.flickr.com/photos/mararie/2185487355 CC BY-SA
  99. 99. That’d be a problem for people who know networks...
  100. 100. @cameronneylon http://cameronneylon.net

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