jni/skan-scripts jni/skan-scripts

  • Stars
    star
    1
  • Language
    Python
  • License
    GNU Lesser Genera...
  • Created over 7 years ago
  • Updated about 7 years ago
Twitter logo Share LinkedIn logo Share Facebook logo Share
jni/skan-scripts
github

jni

Reviews

There are no reviews yet. Be the first to send feedback to the community and the maintainers!

Repository Details

Some scripts and data for skeleton analysis with Python

More Repositories

1

skan

Python module to analyse skeleton (thin object) images
Python
117
star
2

scipy-japan-2019

NumPy tutorial given at SciPy Japan 2019
Jupyter Notebook
33
star
3

ray

Automatic segmentation of electron microscopy volumes
Python
31
star
4

llc-tools

Decorators to make it easier to write SciPy LowLevelCallables
Python
21
star
5

affinder

Quickly find the affine matrix mapping one image to another using manual correspondence points annotation
Python
17
star
6

streaming-talk

Resources for a talk about streaming data analysis in Python
Python
16
star
7

napariboard-proto

Prototype implementation of napari-integrated CNN training viewer
Jupyter Notebook
14
star
8

zarpaint

Paint segmentations directly to on-disk/remote zarr arrays
Python
14
star
9

jax-workshop

Jupyter Notebook
12
star
10

h5cat

Quick preview of HDF5 files on the command line
Python
11
star
11

mysquishy

Recompress zarr chunks in-place
Python
9
star
12

git-tutorial

Notes for a workshop on using git and github
CSS
9
star
13

lma-2021-bioimage-analysis-python

"Bioimage analysis in Python" workshop at LMA2021
Jupyter Notebook
9
star
14

using-python-for-science

The essential guide to using Python for scientists
TeX
7
star
15

functional-programming-in-python

Functional programming in Python talk at Linux Conf Australia 2016
Jupyter Notebook
7
star
16

ipython-config

A config file to keep up with the endless updates from the iPython team.
Python
7
star
17

viridis

A tree library for Python
Python
6
star
18

halfway-to-i2k-skimage-napari

Repo for halfway to i2k workshop: Fundamentals of image analysis in Python with scikit-image, napari, and friends
Python
6
star
19

lesion

Quantify recovery of spinal cord lesions in zebrafish embryos
Python
6
star
20

blob-explorer

Cluster image snippets in an interactive scatterplot and view them
Python
6
star
21

i2k-skimage-napari

Repository for the scikit-image, napari, & friends tutorial at I2K 2020
Jupyter Notebook
5
star
22

mpl-volume-viewer

Simple matplotlib-based volume (3D image) viewer
Jupyter Notebook
5
star
23

pia-tracking

Scripts to work with Pia Larsson's platelet tracking data
Python
4
star
24

napari-midi

Control napari with a USB midi controller
Python
4
star
25

scikit-image-book

Jupyter Notebook
4
star
26

platelet-unet-watershed

Python
4
star
27

skan-talk-scipy-2019

Materials for my talk at SciPy 2019
Jupyter Notebook
4
star
28

aspp2015

Lecture materials for ASPP 2015 in Munich
Jupyter Notebook
3
star
29

sony-digital-paperpile

A synchronisation tool between Paperpile's Google Drive structure and Sony Digital Paper using Box's WebDAV.
Python
3
star
30

fiji-python

Template project to make Python command-line tools to be run by Fiji
Python
2
star
31

numpy-skimage-tutorial

A quick tutorial of NumPy and scikit-image for the COMBINE Python workshop, 2014-11-27
Python
2
star
32

explode-view

Show exploded view of an image.
Python
2
star
33

cellom2tif

Python command line interface to convert Cellomics .C01 files to TIFF.
Python
2
star
34

spectral-graphs

Some tools to do spectral graph analysis in Python
Python
1
star
35

jni.github.io

The home page of Juan Nunez-Iglesias
CSS
1
star
36

performance-tests

A collection of benchmarks to answer Python (initially) performance questions
Python
1
star
37

gel

GEL superpixels: iterative geodesic expansion of labels and recentering
Python
1
star
38

osx-prefs

Command line OSX preferences setup.
Shell
1
star
39

skeletons

Tools to explore skeletonisation methods in 3D
Python
1
star
40

aspp2017-numpy-solutions

Solutions for the NumPy tutorial in ASPP 2017
Jupyter Notebook
1
star
41

aspp-2017-cython-solutions

Solutions for the ASPP 2017 Cython course
Jupyter Notebook
1
star
42

statutes

Statistical utilities
Python
1
star
43

scipy-japan-2020

Repo for SciPy Japan 2020 talk
1
star
44

aspp-2017-cython

Lecture materials for ASPP 2017 in Nikiti, Greece
Jupyter Notebook
1
star
45

betamax

Estimating optimal sampling strategies for high-throughput screens
Python
1
star
46

scientific-programming-in-Python

How to use Python for scientific work
TeX
1
star
47

bashrc

My .bashrc file
Shell
1
star
48

my-documents

A haphazard collection of writing.
1
star
49

gaest

Genetic algorithms to clutser expressed sequence tags
C++
1
star
50

synapse-geometry

Examine features of synapse geometry in EM segmentation data
Python
1
star
51

unfold-embryo

Unfold an image along an anterior-posterior axis defined by fluorescence
Python
1
star
52

aspp2017-numpy

Lecture materials for ASPP 2017 in Nikiti, Greece
Jupyter Notebook
1
star