Calculates preference indices for alternating quadrant sections of optogenetic protocol (section 4 and 5).
PIquadrant(trx, by.fly = F)
input track data frame (must include
boolean to decide whether you calculate PI by section (of the 4 in the standard protocol, arranged by section id x repeat) or by fly id (collating all sections together for each fly)
Frankly I can't remember what happens in this function and that is why you should document
this shit when you write it. I think it picks out the last 5s of each quadrant section and averages the distribution for each fly
by.fly=T) or each repeat of the protocol (
by.fly=F). However I see a lot of weird
NA-based analysis in the code
and I can't remember what it's for.
A data frame with the PI for each fly (if
by.fly is true) or by section and repeat
by.fly is false).
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