File list

This special page shows all uploaded files.

File list
 
Date Name Thumbnail Size Description Versions
04:50, 29 April 2014 Wu2010-crosscorrelationPPI Coloc.pdf (file) 2.36 MB maths description of protein-protein proximity index, variant of image cross correlation spectroscopy coloc approach. 1
09:04, 16 October 2008 White QuantitativeColocAnalysis0408a.pdf (file) 1.23 MB slide from MPI-CBG Image Processing course on quantitative colocalisation analysis for microscopy images. 1
09:09, 2 June 2009 SplitColourChannels.png (file) 367 KB image - color - split channels 1
07:41, 4 June 2009 SplitChannels.png (file) 231 KB how to split channels of an rgb image or a multi channel composite image. 1
08:17, 30 July 2015 SpiralsRGY.png (file) 20 KB output of new spirals macro, in red and green for the blind 1
01:36, 29 May 2009 SpatialCalibrationSS2.png (file) 478 KB spatial calibration tutorial screen shot 2. yellow shows important stuff. 1
01:21, 29 May 2009 SpatialCalibrationSS1.png (file) 620 KB spatial calibration tutorial screen shot 1, showing line selection on the stage micrometer image, and the correct settings in the set scale tool with global turned on. Yellow highliths important stuff. 1
03:37, 14 June 2010 Series Labeler Screen shot.png (file) 97 KB screen shot of sereis labeler in action with its non modal GUI , preview and relevant IJ gui bits also shown for colors and fonts. 1
08:46, 30 July 2015 Scatterplotcoloc.jpg (file) 12 KB coloc scatterplot example from Tony Collins' WCIF site 1
08:13, 3 June 2009 SaturatedDAPIHistogram.png (file) 131 KB added yellow highlights 2
09:12, 16 October 2008 QuantitativeImagingForColocalization0408b.pdf (file) 697 KB slides from mpi-cbg image processing course, quantitative imaging for colocalisation analysis 1
08:28, 2 June 2009 OpenFluoCells.png (file) 311 KB how to open the fluorescentcells.tif sample dataset 1
08:30, 3 June 2009 OffsetProblem.png (file) 290 KB blue and green channels of fluorescentcells.tiff with histograms, showing that there is a high consistent background in the green channel- a detector offset setting problem . 1
04:06, 16 July 2009 NulceiDAPIconfocalSegmentationResults.png (file) 437 KB segmentation results for watershed tutoirial 1
03:57, 16 July 2009 NulceiDAPIconfocalAnalyzeParticles.png (file) 88 KB NulceiDAPIconfocalAnalyzeParticles.png is how to drive the "analyze particle"s built in imagej function in fiji . You need to se a threshold first, even for a "binary" image (because its not really binary, its still 8 bit or whatever) 1
05:02, 15 July 2009 NucleiDAPIconfocalWatershed.png (file) 5 KB NucleiDAPIconfocalWatershed.png is NucleiDAPIconfocal after smoothing, thresholding and watershed 1
04:39, 15 July 2009 NucleiDAPIconfocalGauss3pxSigma.png (file) 124 KB NucleiDAPIconfocalGauss3pxSigma.png is NucleiDAPIconfocal.png after gaussian blue or 3 pixel sigma 1
04:52, 15 July 2009 NucleiDAPIconfocalAutoDefaultThresh.png (file) 5 KB Image:NucleiDAPIconfocalGauss3pxSigma.pngI is iDAPIconfocal.png after smoothing and auto threshold 1
04:19, 15 July 2009 NucleiDAPIconfocal.png (file) 239 KB NucleiDAPIconfocal.png is a DAPI nuclear staining fluorescence micrograph of a cell dense, developing tissue taken with a confocal laser scanning microscope. 1
09:12, 4 June 2009 Manders.pdf (file) 1.12 MB manders et al paper describing split correlation coefficents foir colocalisation 1
09:21, 2 June 2009 LossyJPEGCompressionArtifacts1.png (file) 22 KB lossy jpeg compression artifacts in a tiff file fluorescentcells.tiff 1
07:19, 28 November 2011 LietAlColoc.pdf (file) 791 KB Lis method for colocalization analysis. 1
08:17, 2 June 2009 ImageProperties.png (file) 202 KB added yellow mark for menu item 2
13:34, 28 September 2015 GreenYellowSimultColourIllusion.png (file) 4 KB GreenYellowSimultColourIllusion.png the central circles are actually the same colour. But they dont look like they are. 1
06:20, 10 July 2009 Fiji-ELMI2009.pdf (file) 3.75 MB Dan White FIJI presentation from the ImageJ tutorial sessions at ELMI 2009 in dlasgow 1
09:31, 28 May 2009 Disc60xwithoutoptovar.gif (file) 120 KB Image of a stopped spinning disk confocal scan head from Yokogawa, through a 60 x objective lens on an andor camera, on a n olympus ix71 stand. the holes are about 50 micron in dimeter and about 250 microns apart (but remeber this is the image of the disk 1
09:11, 4 June 2009 Costes etalColoc.pdf (file) 449 KB the costes et al coloc paper describing the auto thresholding and statistical significance by randomisation test 1
03:13, 5 June 2009 ColocWithROI.png (file) 293 KB coloc with roi gives better results! as you dont analyse uninteresting background. 1
11:14, 4 June 2009 ColocTestResult.png (file) 377 KB coloc test result 1
11:13, 4 June 2009 ColocTestGUI2.png (file) 25 KB colcoc test Costes parameters GUI 1
11:12, 4 June 2009 ColocTestGUI1.png (file) 158 KB coloc test GUI, select channels 1
08:34, 30 July 2015 ColocQuadrants.jpg (file) 7 KB from tony colling site , a nice graphice showing how thresholds split the scatter plot into 4 areas, which are used to calculate different measurement. from http://www.uhnresearch.ca/facilities/wcif/imagej/colour27.jpg 1
14:20, 22 August 2011 ColocBlur.gif (file) 63 KB from svi 1
04:00, 5 June 2009 ColocBleedThru.png (file) 257 KB fluorescence emission bleed through gives misleading results, as the signal from one channel appears also in the other! RThis looks like coloclaization! 1
14:20, 22 August 2011 ColocBGnoise.gif (file) 94 KB from svi 1
08:07, 4 June 2009 Coloc2.png (file) 302 KB coloc resuult showing bad offset and nonsense resuts from colco threshold due to bad images. 1
08:08, 4 June 2009 Coloc1b.png (file) 164 KB coloc threshold GUI settings 1
08:05, 4 June 2009 Coloc1.png (file) 331 KB coloc threshold command in menu 1
08:16, 30 July 2015 Ch2coloc.jpg (file) 16 KB channel 2 coloc example image 1
08:16, 30 July 2015 Ch1coloc.gif (file) 46 KB channel 1 coloc example image 1
02:50, 5 June 2009 BadOffsetConfusesCostesAutoThreshold.png (file) 321 KB high offset in this dataset confuses the Costes autothreshold into setting one threshold below the lowest pixel intensity in the green channel. 1
01:38, 31 July 2015 Adler et al-2010-Cytometry Part A.pdf (file) 599 KB refutation of overlap coefficient 1
09:22, 28 May 2009 60Xnooptovar.gif (file) 253 KB image of a stage micrometer through a 60x objective on an andor spinning disk confocal microscope in transmitted light mode on an Olympus IX71 stand. 1
14:19, 22 August 2011 500px-CrossTalkBleedThrough.jpg (file) 18 KB JYT made it 1
14:19, 22 August 2011 500px-ColocalizationSampling.png (file) 29 KB JYT made it 1