Pinned Repositories
python-mastodon-importer
Treadmilling-Speed-Analysis
Automated image analysis protocol to quantify the velocities of dynamic protein filaments
careless
cellcognition_explorer_cedl
cellpose_counting
napari-correct-drift
PyImarisExportSWCWithSurfaceIntersection
pyqt-stylesheets
PyQt5 stylesheets as submodule
spots_fwhm
Full-width-half-maximum of 2D spots: This jython-fiji macro computes the FWHM on bright spots on dark background by, first, finding all maxima in an image (using fiji Find Maxima) and second, iterating over all 2D peak locations. For each peak the horizontal, vertical and two diagonal line intensity profiles are extracted and a general Gaussian function is fit. From that the standard deviation and goodness-of-fit is extracted. The standard deviation is converted to FWHM.
tadpose
sommerc's Repositories
sommerc/pyqt-stylesheets
PyQt5 stylesheets as submodule
sommerc/careless
sommerc/napari-correct-drift
sommerc/spots_fwhm
Full-width-half-maximum of 2D spots: This jython-fiji macro computes the FWHM on bright spots on dark background by, first, finding all maxima in an image (using fiji Find Maxima) and second, iterating over all 2D peak locations. For each peak the horizontal, vertical and two diagonal line intensity profiles are extracted and a general Gaussian function is fit. From that the standard deviation and goodness-of-fit is extracted. The standard deviation is converted to FWHM.
sommerc/cecog_django_doc
Django site for CellCognition documentation
sommerc/cellcognition_explorer_cedl
sommerc/cellpose_counting
sommerc/tadpose
sommerc/trackpal
sommerc/undrift
Corrects local, non-linear drift in tissue by estimating dense optical flow and using it for warping images back to first frame.
sommerc/cell2layer
sommerc/PyImarisExportSWCWithSurfaceIntersection
sommerc/bioformats
Bio-Formats is a Java library for reading and writing data in life sciences image file formats. It is developed by the Open Microscopy Environment (particularly UW-Madison LOCI and Glencoe Software). Bio-Formats is released under the GNU General Public License (GPL); commercial licenses are available from Glencoe Software.
sommerc/cellpose
a generalist algorithm for cellular segmentation
sommerc/cellpose_filter
sommerc/coloco3surf
sommerc/dask-image
Distributed image processing
sommerc/email2rss
sommerc/expansion_factor_bftm
Brute force template matching command line tool for expansion microscopy
sommerc/FrapDiff
sommerc/lmt-analysis
Live Mouse Tracker analysis
sommerc/MindTheApp
sommerc/MN_V1_analysis
sommerc/MSPT-toolkit
Mass-sensitive particle tracking analysis routine
sommerc/n2v
This is the implementation of Noise2Void training.
sommerc/pyoformats
sommerc/rotalign
rotalign - rotate volume movies to match landmarks
sommerc/scikit-image
Image processing in Python
sommerc/seg2dendrite
sommerc/Treadmilling-Speed-Analysis
Automated image analysis protocol to quantify the velocities of dynamic protein filaments