Hello Safe, > > I've only just dipped my toe into using this type of stack but I might need > jump in with both feet over the next few months so a talk such as this would > be timely for me. >
I'm happy to share what works for me. There's also Cython to consider and possibly SIP https://wiki.python.org/moin/SIP if you are considering interfacing C/C++ with Python. > Actually, I was also very interested in the Astronomy aspect of your blog > post such as what Weighted Region Ranking is (the link appears to be broken), thanks for the heads-up on the broken link, I'll fix that. I've pretty much always used Region Ranking for enhancing the contrast of biomedical images. The reason why I used the galaxy image is because it's in the public domain. Having said that, if you think RR has potential for what you do, I can explain what this family of algorithms (adaptive histogram equalisation) does. > and in particular, the FITS format and what it can do over and above the more > "usual" image formats". OK, for FITS, see http://www.astropython.org/tutorial/2010/10/PyFITS-FITS-files-in-Python as a starting point. Looks much more useful than anything I could say! More usual file formats: tifffile.py is probably the extension I use the most for microscopy. Answers all my needs for reading/writing multi-dimensional TIFF files, as well as the relevant metadata. Our datasets are usually 5-D (time,channel,z,y,x), 8 or 16 bit unsigned ints. The metadata covers pixel time, pixel resolution, time between frames, etc. We can also use ImageJ / FIJI to convert any esoteric format to a standardised TIFF via the Bio-formats plugin. For tifffile.py, see http://www.lfd.uci.edu/~gohlke/code/tifffile.py.html Then to read/write PNG or JPEG, I use PIL / Pillows. I rarely use any other image formats. Cheers, Egor -- -- To post: [email protected] To unsubscribe: [email protected] Feeds: http://groups.google.com/group/python-north-west/feeds More options: http://groups.google.com/group/python-north-west --- You received this message because you are subscribed to the Google Groups "Python North-West" group. To unsubscribe from this group and stop receiving emails from it, send an email to [email protected]. For more options, visit https://groups.google.com/d/optout.
