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Electron Microscopy Python Packages

Python packages with the GitHub topic electron-microscopy. Sorted by relevance, with stars and monthly downloads.
hyperspy
rosettasciio

Python library for reading and writing scientific data format

106K 72 50
seung-lab
cloud-volume

Read and write Neuroglancer datasets programmatically.

38K 173 53
pycroscopy
atomai

Deep and Machine Learning for Microscopy

14K 229 42
LiberTEM
libertem

Open pixelated STEM framework

7K 124 73
axondeepseg
axondeepseg

Axon/Myelin segmentation using Deep Learning

4K 126 33
LaurentRDC
scikit-ued

Collection of algorithms and routines for (ultrafast) electron diffraction and scattering

3K 156 21
mgrady3
please

Software for the analysis of Low Energy Electron Microscopy data

3K 17 4
rybakov-ks
particleanalyzer

SEM Image Analysis Tool

2K 18 4
LiberTEM
libertem-blobfinder

LiberTEM correlation and refinement library

2K 5 3
pycroscopy
stemtool

A single package for analyzing atomic resolution STEM, 4D-STEM and STEM-EELS datasets, along with basic STEM simulation functionality

1K 19 2
LiberTEM
libertem-holo

Electron holography reconstruction and preprocessing routines

1K 5 9
leon-vv
traceon

Electromagnetic solver and electron tracer

926 12 7
by256
imagedataextractor

ImageDataExtractor 2.0 - a Python library for electron microscopy image quantification.

923 21 2
jtschwar
multimodal-fusion

Fuse multi-modal electron microscopy datasets using inverse problems

914 5 3
brisvag
stemia

Scripts and Tools for Electron Microscopy Image Analysis.

696 11 1
volume-em
empanada-napari

Napari plugin of algorithms for Panoptic Segmentation of organelles in EM

649 33 15
google-research
sofima

Scalable Optical Flow-based Image Montaging and Alignment

637 95 20
instamatic-dev
instamatic

Python program for automated electron diffraction data collection

529 61 30
jtschwar
mapfusion

Fuse multi-modal electron microscopy datasets using inverse problems

493 5 3
C-CINA
focustools

Python utilities for the FOCUS package

474 6 0
ELEKTRONN
elektronn3

A PyTorch-based library for working with 3D and 2D convolutional neural networks, with focus on semantic segmentation of volumetric biomedical image data

387 171 29
blleng
convert-emd

A tool for exporting data from EMD (Velox) files

378 1 0
ePSIC-DLS
particlespy

A package to perform particle segmentation and analysis

360 21 11
volume-em
empanada-dl

Algorithms for Panoptic Segmentation of organelles in EM

286 2 1
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