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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.

careless

cecog_django_doc

Django site for CellCognition documentation

cell2layer

cellcognition_explorer_cedl

cellh5apps

cellpose

a generalist algorithm for cellular segmentation

cellpose_counting

cellpose_filter

coloco3surf

dask-image

Distributed image processing

email2rss

expansion_factor_bftm

Brute force template matching command line tool for expansion microscopy

frapdiff

kymographs3d

lmt-analysis

Live Mouse Tracker analysis

mindtheapp

mspt-toolkit

Mass-sensitive particle tracking analysis routine

n2v

This is the implementation of Noise2Void training.

napari-correct-drift

pyimarisexportswcwithsurfaceintersection

pyoformats

pyqt-stylesheets

PyQt5 stylesheets as submodule

qdarkstylesheet

A dark style sheet for Qt application

rotalign

rotalign - rotate volume movies to match landmarks

scikit-image

Image processing in Python

seg2dendrite

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

trackpal