VHLab Wiki
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-Techniques and tricks
Cables
Breaking into a cable
Connecting to BNC cables
Cell phones
Compressed gases and air handling
Capnography: modifying a Novametrix/Philips Respironics neonatal airway adapter for small animal use
Setting up a compressed gas system
Electrophysiology / Needlecraft / Pipettes
Chloriding a silver wire -- making a silver chloride electrode
Coating electrodes with Di-I
How to make a smooth needle (cannula)
Making a nice acute recording reference wire
Making Microwire Electrodes
Step by Step Instructions
Pulling tapered pipettes for anatomy / virus delivery / bulk loading
Testing gain of 10,000x amplifier
Github
Google tools
Grants
Halogen lamp illumination
Image processing
Making the background of an image transparent
LED illumination
LED illumination of optical fibers
Positionable LED mounts
Mac OS X
Calibrating a stimulus monitor with Spyder Express 3
Command line
Launching vim from Matlab
Opening Xterm to the path selected in Finder
Runaway processes
Scheduling recurring jobs
Updating to Lion / Mountain Lion / Mavericks / Yosemite
Matlab
A quick Matlab tutorial
Coding punctuation
Export Matlab figures to Illustrator
f1/f0 demo
Files and directories (saving, loading, paths)
Integrate and fire
Jupyter Notebook with Matlab
Manually adding a license (Brandeis-specific)
Reading/writing images
User input
Measuring light with a photodiode
Optogenetics
Fiber optics
ProjectorScope 1
Software
Installing bzr
Synology NAS
Windows
Writing tips
_Our standard rig plan
__How to run things
_Setting up to acquire data
Aborting a stimulus run
FAQ
Two-photon recordings
z_Specific experiments
ChR2Projector panel
Video acquisition on Marek through LabView
_Overview
Data organization
Directory structure and reference.txt files
Files created by vhlabtools and other devices we use before/during acquisition
How to examine stimulus triggers in Intan record
How to examine the parameters of stimuli that were run
how-to-examine-voltage-data-in-intan-record
Modules
_Status/timing information
Interconnect Boxes
Intrinsic signal imaging
Hardware
Intrinsic Imaging (analysis)
FAQ
LabView Intrinsic imaging (acquisition)
FAQ
Quick users guide
LabView multichannel analog input
Two-Photon
2p analysis for dummies - analyzing responses of cells in time series raster images
Customizing TwoPhoton Analyses
Development
FAQ
How do I organize my external 2-photon or confocal data to be analyzed by the VHlabtools?
Line scan analysis
Reading out fluorescent traces
RunExperiment environment
ChR2Sheet
Troubleshooting
Code
Data analysis (after data extraction)
FAQ
Measures of orientation and direction selectivity
Skeleton code for automatic fits
Using the VHlab database, aka the 'experiment' file
Example 1: Examining the contents of a VHLab database
Example 2: Running off-line fitting analyses
Example 3: Reading from the database, performing additional analysis, and adding results back to the database
Example 4: Plotting and calculating some results
The associate type guide
zSpecific Studies
CSD Analysis
csdGUI
csdTBI
Data analysis for DOG and SSM fits
Orientation and direction tuning
zOther labs
Fitz Lab Rigs Overview
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-Techniques and tricks
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Matlab
Information and tricks for using Matlab in general, rather than having to do with the lab's specific tools. This section will expand as we answer each other's questions!
Subpage Listing
A quick Matlab tutorial
Coding punctuation
Export Matlab figures to Illustrator
f1/f0 demo
Files and directories (saving, loading, paths)
Integrate and fire
Jupyter Notebook with Matlab
Manually adding a license (Brandeis-specific)
Reading/writing images
User input
Subpages
(10):
A quick Matlab tutorial
Coding punctuation
Export Matlab figures to Illustrator
f1/f0 demo
Files and directories (saving, loading, paths)
Integrate and fire
Jupyter Notebook with Matlab
Manually adding a license (Brandeis-specific)
Reading/writing images
User input
Comments