Category Archives: Microscopy

Improving dot filtering

Posted on March 4, 2011 by admin

with minimum threshold, (min_int = .01), lots more exogenous dots with poorer gaussian fit and low intensity.  Note: intensities intentionally rescaled, saturating bright dots, in order to make visible the low intensity pixels.     $latex \alpha_E$ = 1; sigmaE = … Continue reading →

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Improving mRNA dot finding

Posted on March 3, 2011 by admin

3D visualization with nuclei:

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Protected: Mitotic waves

Posted on February 28, 2011 by admin

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3D-dot segmentation.

Posted on February 14, 2011 by admin

Working on 3d dot visualization, check duplicate dot counting code and explain method.  These images are endogenous snail from MP09 imaging.  Gaussian sphere pretty good, most dots successfully caught in 3 layers using 340nm steps.   Nice yellow center to … Continue reading →

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Protected: Comparing tiling data to counting data

Posted on February 12, 2011 by admin

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Protected: Quantifying shadow variation

Posted on February 12, 2011 by admin

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Microscopy and Image analysis errors

Posted on February 11, 2011 by admin

Scope 8 micron systematic shift in z position on thermal expansion during laser scanning. The second position acquisition on all the following overnight sessions and on are incomplete: 02-08-11: MP09_22C_y_hb, MP10_22C_sna_y, 01-31-11: MP10_sna_y_22C, MP10_sna_y_22C_b. Threshold of .01 leads to classification … Continue reading →

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Protected: Image Analysis

Posted on February 11, 2011 by admin

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Measuring variation

Posted on February 8, 2011 by admin

red cells have more than 1.35 the mean level, blue Now blue is 1/2 the mean and red is 2x the mean, and we plot the difference between sog and ths for two successive different choices of the threshold defining … Continue reading →

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Image Processing

Posted on February 7, 2011 by admin

Added multi-channel capability to im_singlemolecule.fig Added slice monitoring steps MP10_sna_y_22C emb 02-05 all start too deep in embryo, miss transcript.  06-10 no data. MP10_sna_y_22C_b 02-05 also too deep, 06-10 no data. MP05 data is good ths-dnp is pretty marginal. Time … Continue reading →

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