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clairelbromley / ZebrafishKymographing

Various software tools written for analysis of lumen opening and membrane retraction in zebrafish.
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Can you double check the time placement of the bleach axis? #109

Closed clairelbromley closed 7 years ago

clairelbromley commented 7 years ago

image The kymographs that I am generating for the single cell blebbistatin data seem to suggest that there is an approx 30 second delay between bleaching and the cell response. This would be interesting if it were the case - but the multipage tiffs that are produced suggest that bleaching occurs in the next few frames after bleaching (so 2s!). I was wondering if you would be able to check the code to determine which of these is correct? Perhaps the bleach axis shown on the kymograph is out by a multiple of 2 because of the removal of the brightfield frames?

clairelbromley commented 7 years ago

https://drive.google.com/file/d/0B5BMTPgxKjfcNDMtR2d6aWx3OE0/view?usp=sharing

multipage tiff for this can be found at above link (also you should have an email from google drive) It's 5 s pre-cut and 20-s post cut, and according to the tif we should already be seeing a response from the cell

dougkelly88 commented 7 years ago

Error was with placement of line in kymographs. Fixed in 5509f44f876eff230c6dc63b6b38202810b4327b.