JSON Bond: Behavioral OpeN Data files in the raw

One of the most exciting things about Bond files is the potential to combine data from multiple sources in real time. When we look at how simple tracking data can be represented in a live BOND file (i.e. one that is being updated in real time) we can see the huge power of this type of data representation


"NormalizedTrackingPoints": {
"X:" "0000.500",
"Y:" "0000.500",
"ms:" "000000.001",
"X:" "0000.510",
"Y:" "0000.505",
"ms:" "000000.002",
"X:" "0000.523",
"Y:" "0000.511",
"ms:" "000000.003",
}


With this format both synchronous and asynchronous data can be stored and handled and data from multiple sources can be normalized and synchronized.

JSON Bond - episode 2

Following on in our series about data representation in the new neuroscience data exchange format BOND (Behavioral OpeN Data files), here are code samples showing how the basic file header as it appears in HVS Image 2014, can retain legacy experimental set-ups - something that we've had a lot of interest in.

"legacyheader":"{
"header":"CALVERS$,Maze_2014_Menu[2014.4] v2014.4.102",
"header":"FLDCOLOR,WHITE",
"header":"CAL_DATE,23:15, Tuesday, May 06, 2014",
"header":"CAL_USER,Undefined User",
"header":"FIELDXcm,050.00",
"header":"FIELDycm,050.00",
"header":"NORTHpix,012.000",
"header":"SOUTHpix,172.000",
"header":"WEST_pix,054.000",
"header":"EAST_pix,249.500",
"header":"Runtime...",
"header":"Version$,Maze_2014_Menu[2014.4] v2014.4.130",
"header":"TRIALIS$=Practice1_1.hvs",
"header":"TRACKER$=Microsoft LifeCam VX-6000",
"header":"ARENAIS$ = Open Field 4 cells",
"header":"XRANGEpx= 445",
"header":"ENDED_BY,Time",
"header":"RUNDATE$,18:38, Saturday, May 10, 2014",
"header":"RUNUSER$=Tester",
"header":"SUBJECT$ =mouse01",
"header":"DESCRIPT$=GroupA",
"header":"XCOORD__,YCOORD__",
"},

This is of course the legacy format that can replicate the complete old HSK formats and the pure BOND equivalent is simpler. Next week we'll move on to how the raw data is stored and displayed in the most future-proof, flexible, simple way.

The name is BOND, JSON Bond . . .

You've probably heard quite a lot by now about the new neuroscience data exchange format BOND (Behavioral OpeN Data files), so we thought that you might like to see some code samples over the next few weeks. Here is the basic file header as it appears in HVS Image 2014, which allows any compliant program to recognize your experiment and draw and analyse your experimental data

{
"filetype":"Behavioral OpeN Data",
"fileextension":"bond",
"type":"human readable data object",
"mazetype":"Radial Arm",


Next week we'll move on to show how legacy data, maze dimensions, number of arms and calibrations are stored and then on to how the raw data is stored and displayed in the most future-proof, flexible, simple way.

Wednesday, 13: November,2013 at Society for Neuroscience 2013 in San Diego

11:00 Milk & Cookies! 11am every day drop by and join us for free milk (and soft drinks) and freshly baked cookies from "Uncle Biff's Killer Cookies" San Diego's tastiest cookies.  "They really do make the perfect chocolate chip cookie." Free milk too. Make sure you come in time - they'll go fast!  At booth 335.

12:00 $250 iTunes and Amazon card give-aways. If you might be interested in ordering HVS Image Software soon drop in to booth 335 and get a voucher that will give you your choice of a $250 iTunes and Amazon card when you order. At booth 335.

Tuesday, 12 November, 2013 at Society for Neuroscience 2013 in San Diego

11:00 Milk & Cookies!. 11am every day drop by and join us for free milk (and soft drinks) and freshly baked cookies from "Uncle Biff's Killer Cookies" San Diego's tastiest cookies.  "They really do make the perfect chocolate chip cookie." Free milk too. Make sure you come in time - they'll go fast!  At booth 335.

11:15 HVS Image 2013 Special Presentation: Nokuthula Makena, Department of Human Biology, University of Cape Town:

Elevated plasticity-related protein levels post-exercise do not predict the outcome of spatial learning and memory in the Morris Water Maze task in maternally separated rats. At booth 335.

14:00 The Special Behavioral Techniques Workshop:

• Morris Water Maze (Dr Jhodie Duncan PhD)
• Open Field (Dr Bechara Saab PhD)
• Plus Maze (Dr Matthew Holahan PhD)
• Novel Object Recognition/placement (Dr Áine Duffy PhD)

16:00  HVS Image regalia give away. T-Shirts, Mugs, Pens, hats.

Monday, 11 November, 2013 at Society for Neuroscience 2013 in San Diego

11:00 Milk & Cookies! 11am every day drop by and join us for free milk (and soft drinks) and freshly baked cookies from "Uncle Biff's Killer Cookies" San Diego's tastiest cookies.  "They really do make the perfect chocolate chip cookie." Free milk too. Make sure you come in time - they'll go fast!  At booth 335.

11:15 HVS Image 2013 Special Presentation:  Áine Mary Duffy, Ph.D., Center for Dementia Research, The Nathan Kline Institute for Psychiatric Research:  At booth 335.

Thioflavin-S staining and an antibody to amyloid-β (Aβ), 6E10, were used to examine Aβ-plaque.

11:40 HVS Image 2013 Special Presentation:  Bechara Saab, PhD, Brain Research Institute, University of Zurich:  At booth 335.

Studying the platform-relocation version of the water maze. A method paper on the technique which discusses the theoretical and practical implications of the paradigm.

16:00 HVS Image regalia give away. T-Shirts, Mugs, Pens, hats. At booth 335.

Sunday, 10 November, 2013 at Society for Neuroscience 2013 in San Diego

11:00 Milk & Cookies! 11 am every day drop by and join us for free milk (and soft drinks) and freshly baked cookies from "Uncle Biff's Killer Cookies" San Diego's tastiest cookies.  "They really do make the perfect chocolate chip cookie." Free milk too. Make sure you come in time - they'll go fast! At booth 335.

11:15 HVS Image 2013 Special Presentation:  Dr Jhodie Duncan, Florey Institute of Neuroscience and Mental Health, Department Anatomy & Neuroscience: At booth 335.

Chronic Intermittent Toluene Inhalation During Adolescence Alters Reinforcement Learning & Causes Long-Term Glutamatergic Dysfunction.


11:40 HVS Image 2013 Special Presentation:  Matthew R Holahan, PhD., Department of Neuroscience, Carleton University: At booth 335.

Connectivity-based changes during a late, postnatal developmental period in the hippocampus



16:00 HVS Image regalia give away. T-Shirts, Mugs, Pens, hats.  At booth 335.

21:00 Free Drink and Scientist Meetup at top San Diego Nightclub - The Altitude Sky Lounge  (tickets only - pick a ticket up from us any time at booth 335)