m4i-nanoscopy Goto Github PK

4k-screen

Scripts to run the 4k screen

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.

focus

High Throughput Electron Microscopy Image Processing Software

geant4medipix

Pixel based Medipix geometry with digitiser for simulating Monte Carlo and charge transport simulation as well as chip electronics.

insilicotem

Simulator of a Transmission Electron Microscope (TEM) optimized for biological specimen.

instamatic

Python program to collect serial and rotation electron diffraction data

linescan

motioncorr

motion correction for movies recorded using direct electron detectors

mtf-nps-dqe

Python scripts for measuring MTF and NPS, and calculating DQE.

ome-documentation

Sphinx-based documentation for the Open Microscopy Environment

omero-user-scripts

Plugins for OMERO

openmicroscopy

OME (Open Microscopy Environment) develops open-source software and data format standards for the storage and manipulation of biological light microscopy data. A joint project between universities, research establishments and industry in Europe and the USA, OME has over 20 active researchers with strong links to the microscopy community. Funded by private and public research grants, OME has been a major force on the international microscopy stage since 2000.

relion

Image-processing software for cryo-electron microscopy

sd-auto-copier

Python application intended to run on RasberryPi to automatically read an SD card and copy its contents to the network drive

tpx3-event-localisation

Sub-pixel electron detection using a convolutional neural network

tpx3-tot-correction

Matlab scripts to calculate the ToT correction matrix

tpx3eventviewer

Convert the sparse event stream (in HDF5) from tpx3HitParser to frames

tpx3hitparser

Parse Timepix3 raw files to hits, clusters and events

trajectory-model