analysis:course:week2
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analysis:course:week2 [2013/09/24 15:10] dzhi [Figure callback functions] |
analysis:course:week2 [2018/07/07 10:19] (current) |
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| Create a folder with today's date and ''cd'' to it. This will be your "scratch" working directory with stuff that you don't necessarily intend to push to GitHub (although you are welcome to if it's easier or you would like me to be able to see what you did). At the end of this module you will have something to push, but this will go in the ''shared'' folder under ''BIOL680'' once you are satisfied with your work. | Create a folder with today's date and ''cd'' to it. This will be your "scratch" working directory with stuff that you don't necessarily intend to push to GitHub (although you are welcome to if it's easier or you would like me to be able to see what you did). At the end of this module you will have something to push, but this will go in the ''shared'' folder under ''BIOL680'' once you are satisfied with your work. | ||
| - | Grab the folder ''R042-2013-08-18'' from the lab database, making sure you login with ''BIOL680'' credentials so we all have the same version. As before, place the data in a sensible local location. This data set was collected from the dorsal CA1 region of the hippocampus of a rat performing a T-maze task, using a drive with 16 independently movable tetrodes. Spike and LFP data was recorded from each tetrode; possible spike events were detected online and stored for offline spike-sorting, and LFPs were sampled at 2kHz and bandpass filtered between 1-475Hz. | + | Grab the folder ''R042-2013-08-18'' from the lab database, making sure you login with ''BIOL680'' credentials so we all have the same version. As before, place the data in a sensible local location. This data set was collected from the dorsal CA1 region of the hippocampus of a rat performing a T-maze task, using a drive with 16 independently movable tetrodes. Spike and LFP data was recorded from each tetrode; possible spike events were detected online and stored for offline spike-sorting, and LFPs were sampled at 2kHz and bandpass filtered between 1-475Hz. (A quirk of this particular data set is that certain time intervals are cut out of the spike data, but not the LFP. So you may notice some odd looking gaps in the rasterplot.) |
| Create a ''sandbox.m'' file in your daily folder. In this file, use cell mode to load some spike trains, a LFP, and position data as follows (recall you can use Ctrl+Enter to execute the code in a cell): | Create a ''sandbox.m'' file in your daily folder. In this file, use cell mode to load some spike trains, a LFP, and position data as follows (recall you can use Ctrl+Enter to execute the code in a cell): | ||
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| * Don't test on the full data set. Things will be faster if you use restricted data for testing. | * Don't test on the full data set. Things will be faster if you use restricted data for testing. | ||
| * Plot everything in a single set of axes, i.e. without using ''subplot()'' or ''axes()''; this means you have to rescale and add a baseline offset (a.k.a. DC component) to the LFP signals so that they don't overlap. | * Plot everything in a single set of axes, i.e. without using ''subplot()'' or ''axes()''; this means you have to rescale and add a baseline offset (a.k.a. DC component) to the LFP signals so that they don't overlap. | ||
| - | * Develop in the ''sandbox'' file so that I can use cell mode and have easy access to the workspace. Only when everything is basically working, move to putting everything inside a function. | + | * Develop in the ''sandbox'' file so that you can use cell mode and have easy access to the workspace. Only when everything is basically working, move to putting everything inside a function. |
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