An	
  Introduc+on	
  to	
  Scratchpads	
  

	
  
Ed	
  Baker	
  
Department	
  of	
  Life	
  Sciences,	
  Natural	
  History	
  Museum	
  




       Introduc+on	
  >	
  Why	
  Scratchpads?	
  >	
  What	
  is	
  a	
  Scratchpad?	
  >	
  About	
  the	
  Scratchpads	
  project	
  >	
  Resources	
  
Why	
  Scratchpads?	
  




Introduc+on	
  >	
  Why	
  Scratchpads?	
  >	
  What	
  is	
  a	
  Scratchpad?	
  >	
  About	
  the	
  Scratchpads	
  project	
  >	
  Resources	
  
Science	
  is	
  global	
  

•  It	
  needs	
  global	
  standards	
  

•  Coopera+on	
  of	
  large	
  ins+tu+ons	
  and	
  organisa+ons	
  




Science	
  is	
  carried	
  out	
  “locally”	
  

•  By	
  local	
  scien+sts	
  

•  Involvement	
  with	
  local	
  infrastructures	
  

•  Funded	
  locally	
  




     Introduc+on	
  >	
  Why	
  Scratchpads?	
  >	
  What	
  is	
  a	
  Scratchpad?	
  >	
  About	
  the	
  Scratchpads	
  project	
  >	
  Resources	
  
The	
  problems	
  with	
  tradi9onal	
  published	
  data	
  

•  Most	
  descrip+ons	
  are	
  under	
  copyright	
  (~1923)	
  

•  Limited	
  Open	
  Access	
  and	
  accessibility	
  

•  No	
  mechanism	
  for	
  updates	
  &	
  correc+ons	
  

•  LiUle	
  or	
  no	
  data	
  integra+on	
  (except	
  cita+ons)	
  

•  No	
  mechanism	
  for	
  community	
  engagement	
  




    Introduc+on	
  >	
  Why	
  Scratchpads?	
  >	
  What	
  is	
  a	
  Scratchpad?	
  >	
  About	
  the	
  Scratchpads	
  project	
  >	
  Resources	
  
This	
  leads	
  to:	
  

•  Vast	
  amounts	
  of	
  unpublished	
  taxonomic	
  “knowledge”	
  

•  The	
  knowledge	
  that	
  is	
  published	
  cannot	
  be	
  mobilised	
  

•  Low	
  scien+fic	
  impact	
  (but	
  long	
  half-­‐life)	
  

	
  

•  A	
  complex,	
  fragmented	
  &	
  hard	
  to	
  navigate	
  landscape	
  

•  Dispersed	
  data	
  sources	
  

•  Difficul+es	
  for	
  collec+ng	
  informa+on	
  for	
  research	
  




       Introduc+on	
  >	
  Why	
  Scratchpads?	
  >	
  What	
  is	
  a	
  Scratchpad?	
  >	
  About	
  the	
  Scratchpads	
  project	
  >	
  Resources	
  
The	
  Concept	
  




  Your data                                                                                  External data & services




Introduc+on	
  >	
  Why	
  Scratchpads?	
  >	
  What	
  is	
  a	
  Scratchpad?	
  >	
  About	
  the	
  Scratchpads	
  project	
  >	
  Resources	
  
What	
  is	
  a	
  Scratchpad?	
  




Introduc+on	
  >	
  Why	
  Scratchpads?	
  >	
  What	
  is	
  a	
  Scratchpad?	
  >	
  About	
  the	
  Scratchpads	
  project	
  >	
  Resources	
  
Scratchpads	
  are	
  not	
  


•  A	
  single	
  biodiversity	
  database	
  


•  A	
  tool	
  just	
  for	
  taxonomists	
  




   Introduc+on	
  >	
  Why	
  Scratchpads?	
  >	
  What	
  is	
  a	
  Scratchpad?	
  >	
  About	
  the	
  Scratchpads	
  project	
  >	
  Resources	
  
The	
  Basics	
  


•  Hosted	
  websites	
  for	
  biodiversity	
  data	
  


•  Virtual	
  research	
  &	
  publica+on	
  pla^orm	
  


•  Completely	
  open	
  access	
  &	
  open	
  source	
  


•  Modular	
  &	
  flexible	
  




     Introduc+on	
  >	
  Why	
  Scratchpads?	
  >	
  What	
  is	
  a	
  Scratchpad?	
  >	
  About	
  the	
  Scratchpads	
  project	
  >	
  Resources	
  
Taxon	
  pages	
  




    Introduc+on	
  >	
  Why	
  Scratchpads?	
  >	
  What	
  is	
  a	
  Scratchpad?	
  >	
  About	
  the	
  Scratchpads	
  project	
  >	
  Resources	
  
Distribu9on	
  Maps	
  




    Introduc+on	
  >	
  Why	
  Scratchpads?	
  >	
  What	
  is	
  a	
  Scratchpad?	
  >	
  About	
  the	
  Scratchpads	
  project	
  >	
  Resources	
  
Literature	
  




    Introduc+on	
  >	
  Why	
  Scratchpads?	
  >	
  What	
  is	
  a	
  Scratchpad?	
  >	
  About	
  the	
  Scratchpads	
  project	
  >	
  Resources	
  
See	
  who	
  is	
  using	
  your	
  site	
  




     Introduc+on	
  >	
  Why	
  Scratchpads?	
  >	
  What	
  is	
  a	
  Scratchpad?	
  >	
  About	
  the	
  Scratchpads	
  project	
  >	
  Resources	
  
Coming	
  soon	
  

•    Matrix-based keys using the character project


•    Publication tool - submit manuscripts made on your site to ZooKeys,

     Phytokeys or the new Biodiversity Data Journal


•    Checklists, multiple language support and more!




     Introduc+on	
  >	
  Why	
  Scratchpads?	
  >	
  What	
  is	
  a	
  Scratchpad?	
  >	
  About	
  the	
  Scratchpads	
  project	
  >	
  Resources	
  
The	
  Scratchpads	
  project	
  




Introduc+on	
  >	
  Why	
  Scratchpads?	
  >	
  What	
  is	
  a	
  Scratchpad?	
  >	
  About	
  the	
  Scratchpads	
  project	
  >	
  Resources	
  
How	
  are	
  Scratchpads	
  funded?	
  

2007                                              2011                                                    2014




                                                                ViBRANT!
                                                                Virtual	
  Biodiversity	
  Research	
  

                                                                           &




Introduc+on	
  >	
  Why	
  Scratchpads?	
  >	
  What	
  is	
  a	
  Scratchpad?	
  >	
  About	
  the	
  Scratchpads	
  project	
  >	
  Resources	
  
Introduc+on	
  >	
  Why	
  Scratchpads?	
  >	
  What	
  is	
  a	
  Scratchpad?	
  >	
  About	
  the	
  Scratchpads	
  project	
  >	
  Resources	
  
Who	
  uses	
  Scratchpads?	
  
• Professional scientists

• Amateur naturalists

• Citizen scientists

• Individuals, groups & societies




                                                                                                                                                         Users
                                                                        Sites




                                                                                                    ViBRANT                             SP 2


   Introduc+on	
  >	
  Why	
  Scratchpads?	
  >	
  What	
  is	
  a	
  Scratchpad?	
  >	
  About	
  the	
  Scratchpads	
  project	
  >	
  Resources	
  
Protec+ng	
  your	
  data	
  
• Nightly backups of database and files

• Off-site tape backup

• Whole-site archives available upon request

• Berlin mirror




 Introduc+on	
  >	
  Why	
  Scratchpads?	
  >	
  What	
  is	
  a	
  Scratchpad?	
  >	
  About	
  the	
  Scratchpads	
  project	
  >	
  Resources	
  
Resources	
  




Introduc+on	
  >	
  Why	
  Scratchpads?	
  >	
  What	
  is	
  a	
  Scratchpad?	
  >	
  About	
  the	
  Scratchpads	
  project	
  >	
  Resources	
  
Wiki	
  

•    help.scratchpads.eu	
  -­‐	
  training	
  manuals,	
  videos	
  


Ambassadors	
  Programme	
  

•    scratchpads.eu	
  –	
  local	
  experienced	
  users	
  


Issues	
  Queue	
  

•    Report	
  bugs	
  and	
  suggest	
  features	
  from	
  your	
  site	
  


Sandbox	
  

•    Sandbox.scratchpads.eu	
  –	
  for	
  trying	
  things	
  before	
  doing	
  them	
  on	
  your	
  site	
  




     Introduc+on	
  >	
  Why	
  Scratchpads?	
  >	
  What	
  is	
  a	
  Scratchpad?	
  >	
  About	
  the	
  Scratchpads	
  project	
  >	
  Resources	
  
Ques+ons?	
  

Scratchpads Training Course

  • 1.
    An  Introduc+on  to  Scratchpads     Ed  Baker   Department  of  Life  Sciences,  Natural  History  Museum   Introduc+on  >  Why  Scratchpads?  >  What  is  a  Scratchpad?  >  About  the  Scratchpads  project  >  Resources  
  • 2.
    Why  Scratchpads?   Introduc+on  >  Why  Scratchpads?  >  What  is  a  Scratchpad?  >  About  the  Scratchpads  project  >  Resources  
  • 3.
    Science  is  global   •  It  needs  global  standards   •  Coopera+on  of  large  ins+tu+ons  and  organisa+ons   Science  is  carried  out  “locally”   •  By  local  scien+sts   •  Involvement  with  local  infrastructures   •  Funded  locally   Introduc+on  >  Why  Scratchpads?  >  What  is  a  Scratchpad?  >  About  the  Scratchpads  project  >  Resources  
  • 4.
    The  problems  with  tradi9onal  published  data   •  Most  descrip+ons  are  under  copyright  (~1923)   •  Limited  Open  Access  and  accessibility   •  No  mechanism  for  updates  &  correc+ons   •  LiUle  or  no  data  integra+on  (except  cita+ons)   •  No  mechanism  for  community  engagement   Introduc+on  >  Why  Scratchpads?  >  What  is  a  Scratchpad?  >  About  the  Scratchpads  project  >  Resources  
  • 5.
    This  leads  to:   •  Vast  amounts  of  unpublished  taxonomic  “knowledge”   •  The  knowledge  that  is  published  cannot  be  mobilised   •  Low  scien+fic  impact  (but  long  half-­‐life)     •  A  complex,  fragmented  &  hard  to  navigate  landscape   •  Dispersed  data  sources   •  Difficul+es  for  collec+ng  informa+on  for  research   Introduc+on  >  Why  Scratchpads?  >  What  is  a  Scratchpad?  >  About  the  Scratchpads  project  >  Resources  
  • 6.
    The  Concept   Your data External data & services Introduc+on  >  Why  Scratchpads?  >  What  is  a  Scratchpad?  >  About  the  Scratchpads  project  >  Resources  
  • 7.
    What  is  a  Scratchpad?   Introduc+on  >  Why  Scratchpads?  >  What  is  a  Scratchpad?  >  About  the  Scratchpads  project  >  Resources  
  • 8.
    Scratchpads  are  not   •  A  single  biodiversity  database   •  A  tool  just  for  taxonomists   Introduc+on  >  Why  Scratchpads?  >  What  is  a  Scratchpad?  >  About  the  Scratchpads  project  >  Resources  
  • 9.
    The  Basics   • Hosted  websites  for  biodiversity  data   •  Virtual  research  &  publica+on  pla^orm   •  Completely  open  access  &  open  source   •  Modular  &  flexible   Introduc+on  >  Why  Scratchpads?  >  What  is  a  Scratchpad?  >  About  the  Scratchpads  project  >  Resources  
  • 10.
    Taxon  pages   Introduc+on  >  Why  Scratchpads?  >  What  is  a  Scratchpad?  >  About  the  Scratchpads  project  >  Resources  
  • 11.
    Distribu9on  Maps   Introduc+on  >  Why  Scratchpads?  >  What  is  a  Scratchpad?  >  About  the  Scratchpads  project  >  Resources  
  • 12.
    Literature   Introduc+on  >  Why  Scratchpads?  >  What  is  a  Scratchpad?  >  About  the  Scratchpads  project  >  Resources  
  • 13.
    See  who  is  using  your  site   Introduc+on  >  Why  Scratchpads?  >  What  is  a  Scratchpad?  >  About  the  Scratchpads  project  >  Resources  
  • 14.
    Coming  soon   •  Matrix-based keys using the character project •  Publication tool - submit manuscripts made on your site to ZooKeys, Phytokeys or the new Biodiversity Data Journal •  Checklists, multiple language support and more! Introduc+on  >  Why  Scratchpads?  >  What  is  a  Scratchpad?  >  About  the  Scratchpads  project  >  Resources  
  • 15.
    The  Scratchpads  project   Introduc+on  >  Why  Scratchpads?  >  What  is  a  Scratchpad?  >  About  the  Scratchpads  project  >  Resources  
  • 16.
    How  are  Scratchpads  funded?   2007 2011 2014 ViBRANT! Virtual  Biodiversity  Research   & Introduc+on  >  Why  Scratchpads?  >  What  is  a  Scratchpad?  >  About  the  Scratchpads  project  >  Resources  
  • 17.
    Introduc+on  >  Why  Scratchpads?  >  What  is  a  Scratchpad?  >  About  the  Scratchpads  project  >  Resources  
  • 18.
    Who  uses  Scratchpads?   • Professional scientists • Amateur naturalists • Citizen scientists • Individuals, groups & societies Users Sites ViBRANT SP 2 Introduc+on  >  Why  Scratchpads?  >  What  is  a  Scratchpad?  >  About  the  Scratchpads  project  >  Resources  
  • 19.
    Protec+ng  your  data   • Nightly backups of database and files • Off-site tape backup • Whole-site archives available upon request • Berlin mirror Introduc+on  >  Why  Scratchpads?  >  What  is  a  Scratchpad?  >  About  the  Scratchpads  project  >  Resources  
  • 20.
    Resources   Introduc+on  >  Why  Scratchpads?  >  What  is  a  Scratchpad?  >  About  the  Scratchpads  project  >  Resources  
  • 21.
    Wiki   •  help.scratchpads.eu  -­‐  training  manuals,  videos   Ambassadors  Programme   •  scratchpads.eu  –  local  experienced  users   Issues  Queue   •  Report  bugs  and  suggest  features  from  your  site   Sandbox   •  Sandbox.scratchpads.eu  –  for  trying  things  before  doing  them  on  your  site   Introduc+on  >  Why  Scratchpads?  >  What  is  a  Scratchpad?  >  About  the  Scratchpads  project  >  Resources  
  • 22.