Mailman 3 March 2015 - scikit-image

The right way to access red channel in Lena
by Adam Hughes March 27, 2015

March 27, 2015

I'm trying to build a filter to show only the red channel in the lena image. I defined two masks: (1,0,0) (255,0,0) Oddly, the (255,0,0) gives me the correct plot when doing imshow(), but (1,0,0) doesn't. Why does the (1,0,0) mask lead to light regions being dark and dark regions being light? Here's a working example: %pylab inline from skimage.data import lena lena = lena() f, (ax1, ax2) = plt.subplots(1,2, figsize=(8,6)) ax1.imshow(lena*(1,0,0)) ax2.imshow(lena*(255,0,0))

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Re: Face detection
by Daniil Pakhomov March 26, 2015

March 26, 2015

Here it is https://docs.google.com/document/d/19omiz31ewE-oWcveSCq7hSFWRsnRPjF39np6yL_… четверг, 28 марта 2013 г., 10:35:31 UTC+1 пользователь Stefan van der Walt написал: > > Hi everyone > > I've been interested in getting face detection into skimage for a > while. This morning, Nathan Faggian reminded me that the highly > popular Viola-Jones detector is patent encumbered (yes, if you're not > careful you can use patented code in packages like OpenCV). However, > the following link seems to suggest that we can work around that by > training our own classifier with different features: > > > http://rafaelmizrahi.blogspot.com/2007/02/intel-opencv-face-detection-licen… > > If there's any interest in working on this, or if you already have an > algorithm available, please get in touch. > > Stéfan >

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Re: Face detection
by Daniil Pakhomov March 26, 2015

March 26, 2015

Hello, Stefan. Could I ask you to review my proposal, please? Because I have a little confusion on how we can avoid the patent. Thank you. четверг, 28 марта 2013 г., 10:35:31 UTC+1 пользователь Stefan van der Walt написал: > > Hi everyone > > I've been interested in getting face detection into skimage for a > while. This morning, Nathan Faggian reminded me that the highly > popular Viola-Jones detector is patent encumbered (yes, if you're not > careful you can use patented code in packages like OpenCV). However, > the following link seems to suggest that we can work around that by > training our own classifier with different features: > > > http://rafaelmizrahi.blogspot.com/2007/02/intel-opencv-face-detection-licen… > > If there's any interest in working on this, or if you already have an > algorithm available, please get in touch. > > Stéfan >

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Re: Digest for scikit-image@googlegroups.com - 2 updates in 2 topics
by Jérôme Kieffer March 26, 2015

March 26, 2015

On Wed, 25 Mar 2015 22:40:13 +0900 Raphael Okoye <raphael(a)aims.ac.za> wrote: > hi guys, > > Can one implement SIFT and SURF functionalities available in openCV > in Sckit-image?Thanks Hi I worked a bit on it ... Here are Python wrapper to C++ libraries (included) https://github.com/kif/imageAlignment This is the Sift version on GPU (OpenCL, so it also runs multithreaded on CPU): https://github.com/kif/sift_pyocl The patent issue mentioned by Stefan applies even if the code is GPL or MIT... HTH -- Jérôme Kieffer <google(a)terre-adelie.org>

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Re: Digest for scikit-image@googlegroups.com - 2 updates in 2 topics
by Stéfan van der Walt March 26, 2015

March 26, 2015

On Wed, Mar 25, 2015 at 6:40 AM, Raphael Okoye <raphael(a)aims.ac.za> wrote: > Can one implement SIFT and SURF functionalities available in openCV > in Sckit-image?Thanks Unfortunately SIFT and SURF are patent encumbered, so we cannot include them in scikit-image. That said, I have file readers available for the format output by die provided SIFT and SURF binaries. You can also use SIFT and SURF from OpenCV inter-operatively with scikit-image. We also have other kinds of similar feature detectors, such as CenSURE, implemented (see `skimage.feature`). Stéfan

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Website designer volunteer
by Stéfan van der Walt March 26, 2015

March 26, 2015

Hi folks, I know it's a bit of a long shot, but I'd like to find a volunteer to work on the layout and readability of our website. If you know of anyone interested in doing design work the same way we do software development, please let me know. They will have to be able to work with our current workflow, so good technical chops are a must. Thanks, Stéfan

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Fwd: Opening for Full-Time Postdoctoral Researchers
by Stéfan van der Walt March 26, 2015

March 26, 2015

Please see below for a postdoc opportunity at my group. ---------- Forwarded message ---------- Full-Time Postdoctoral Researcher Positions Open We are now accepting applications for full-time postdoctoral researchers at BIDS. Successful applicants will join our current cohort of fellows in helping make data analysis easier in the research sciences. We are looking for postdoctoral researchers with excellent credentials in their fields as well as strong interests in advancing data-analysis approaches with a community of like-minded individuals from across campus. Your data does not have to be “big data” for you to be eligible for the program. If you find your data-related problems to be at all unique and challenging, we welcome you to work with us. In particular, we are interested in applications from cross-disciplinary groups and from individuals exploring topics that may broaden the research diversity of our community (e.g., genetics, economics, and the Internet of Things). Each postdoctoral researcher will become part of and contribute to a growing ecosystem that brings together faculty, other postdoctoral scholars, students, staff, and alumni to form a strong network that assists researchers in advancing data-analysis methods and inquiry, expanding and building new software and analytics tools, sharing best practices, and more. To learn more about this position’s requirements and responsibilities, please visit the application page <http://berkeley.us9.list-manage.com/track/click?u=af6553c6218a60168c066d7e2…>. In addition, if you know anyone who would be interested in this program, please feel free to forward this message along. <http://berkeley.us9.list-manage1.com/track/click?u=af6553c6218a60168c066d7e…> Twitter <http://berkeley.us9.list-manage.com/track/click?u=af6553c6218a60168c066d7e2…> <http://berkeley.us9.list-manage.com/track/click?u=af6553c6218a60168c066d7e2…> Website <http://berkeley.us9.list-manage.com/track/click?u=af6553c6218a60168c066d7e2…> Berkeley Institute for Data Science (BIDS) · 190 Doe Library · Berkeley, CA 94720 · USA [image: Email Marketing Powered by MailChimp] <http://www.mailchimp.com/monkey-rewards/?utm_source=freemium_newsletter&utm…>

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Re: Water-shedding non-circular particles
by Kai Wiechen March 25, 2015

March 25, 2015

I have a problem closely related to this (segmenting touching irregular nuclei in histology images). Is it possible to get the original (RGB ??) image to test something? Best regards, Kai On Thursday, March 19, 2015 at 11:07:58 PM UTC+1, Claiborne Morton wrote: > > Hey guys, Im still having trouble finding ways to separate touching > particles if the are not both circular. Further when dealing with > elliptical shapes, a single particle tends to incorrectly get cut in half. > Any ideas how I could change parameters in the water-shedding function to > correct for this? Attached are a few problem cases so you can see examples. > > Thanks, > Clay > [image: Inline image 1] > > >

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Example: Scikit-image and trackpy (bubble tracking in foams)
by François Boulogne March 25, 2015

March 25, 2015

Hi, Just for your information, I wrote an example based on my research to show the use of scikit-image with trackpy for feature detection and tracking. http://nbviewer.ipython.org/github/soft-matter/trackpy-examples/blob/master… Hopefully, this might be helpful for future workshops or presentations. Best, -- François Boulogne. http://www.sciunto.org GPG: 32D5F22F

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Re: Digest for scikit-image@googlegroups.com - 2 updates in 2 topics
by Raphael Okoye March 25, 2015

March 25, 2015

hi guys, Can one implement SIFT and SURF functionalities available in openCV in Sckit-image?Thanks Raphael On 24/03/2015, scikit-image(a)googlegroups.com <scikit-image(a)googlegroups.com> wrote: > ============================================================================= > Today's topic summary > ============================================================================= > > Group: scikit-image(a)googlegroups.com > URL: > > https://groups.google.com/forum/?utm_source=digest&utm_medium=email#!forum/… > > > - Dynamic intensity scaling for CollectionViewer [1 Update] > http://groups.google.com/group/scikit-image/t/8aee8a915f035440 > - GSoC: Rewriting scipy.ndimage in Cython [1 Update] > http://groups.google.com/group/scikit-image/t/5c1c936b30cba4d4 > > > ============================================================================= > Topic: Dynamic intensity scaling for CollectionViewer > URL: http://groups.google.com/group/scikit-image/t/8aee8a915f035440 > ============================================================================= > > ---------- 1 of 1 ---------- > From: Ferdinand Greiss <ferdinand.greiss(a)gmail.com> > Date: Mar 23 08:15AM -0700 > URL: http://groups.google.com/group/scikit-image/msg/1d6c8e510adc4334 > > Hallo, > > Thanks for your amazing project on image processing. > > I was wondering whether it would be straight forward to implement automatic > > rescaling of intensity (or y axis on LineProfile widget) in order to > account for bleaching in image sequences. Otherwise the line plot will > vanish below the pre-computed value of the first image and I won't be able > to see much after the first few images. > > Thanks for any help or/and suggestions. > Ferdinand > > > > ============================================================================= > Topic: GSoC: Rewriting scipy.ndimage in Cython > URL: http://groups.google.com/group/scikit-image/t/5c1c936b30cba4d4 > ============================================================================= > > ---------- 1 of 1 ---------- > From: "Stéfan van der Walt" <stefanv(a)berkeley.edu> > Date: Mar 23 01:31AM -0700 > URL: http://groups.google.com/group/scikit-image/msg/cbacf3d255b16d93 > > Hi folks, > >> @all: it's maybe good to know that Aman has already submitted 5 PRs to >> Scipy >> (4 small ones merged, 1 larger one for which the bottleneck is on our >> side): >> https://github.com/scipy/scipy/pulls?q=is%3Apr+author%3Abewithaman+is%3Aclo… > > I wasn't aware--thanks for the heads-up! > > Stéfan > > > > > > > -- > You have received this digest because you're subscribed to updates for this > group. You can change your settings on the group membership page: > > https://groups.google.com/forum/?utm_source=digest&utm_medium=email#!forum/… > . > To unsubscribe from this group and stop receiving emails from it, send an > email to scikit-image+unsubscribe(a)googlegroups.com. > >

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