AllenInstitute / AllenInstitute/MIES

SweepFormula: P/x subtraction

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DataAcquisition DataBrowser/SweepBrowser SweepFormula
Dominant language
IGOR Pro
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30
Forks
11
Avg merge
1d 40m
Merged PRs (30d)
8

Description

  • Split into two issues: One for DAQ and one for display
  • Think about doing it in the wavebuilder (check with experts and other software)

Implement p / x subtraction in MIES.

This is a technique used to subtract leak (aka linear) currents from current traces.

Desired workflow:

  • User builds stimset in waveBuilder e.g. vClamp1
  • At data acquisition, if user has activated p/x (user defines x; -4 is common), the stimulus set is modified by MIES and then acquired.
  • In the first sweep, MIES acquires the waveBuilder vClamp1 sweep 1. In the same sweep, immediately following vClamp1, vClamp1 / x is acquired. vClamp1 / x is repeated x times.

So, a stimset that looks like this:
image

Get acquired like this when x = -4:
image

  • When p/4 data is acquired, provide the user with the option of displaying the subtracted traces. The display of subtracted traces could be done using SF.

  • Subtraction formula: vClamp1 - (x * (average of vclamp / x traces)).

Contributor guide

Open the contributing guide

First steps

  1. Read the whole issue, then the project's contributing guide.
  2. Comment on the issue to say you are picking it up — it saves two people doing the same work.
  3. Fork the repository and make your change on a branch.
  4. Open a pull request that references the issue number.

Research direction

The issue names waveBuilder, DAQ, display, and SF as the areas to investigate; begin by resolving the requested split between acquisition and display and checking how waveBuilder should participate. Confirm the workflow with project experts, then define completion around acquiring the paired p/x sweeps and offering the specified subtraction display.

Written by the indexing model from the issue text.

Assessment

Domain
data
Issue type
Feature
Difficulty
5/5
Estimated time
Over a week
Activity status
Stale
Clarity
Mostly clear
Newbie friendliness
30/100

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