Discover @jni Open Source projects

Juan Nunez-Iglesias (@jni)

jni

Stars
432
Global Rank 65,700 (Top 3 %)
Followers 374
Following 9
Registered about 14 years ago
Most used languages

Python
58.8 %

Jupyter Notebook
27.5 %

TeX
3.9 %

CSS
3.9 %

Shell
3.9 %

C++
2.0 %
Location 🇦🇺 Australia
Country Total Rank 1,196
Country Ranking

Jupyter Notebook
57

TeX
95

Python
203

CSS
285

Shell
1,876

C++
2,472

skan

Python module to analyse skeleton (thin object) images

scipy-japan-2019

NumPy tutorial given at SciPy Japan 2019

Jupyter Notebook

ray

Automatic segmentation of electron microscopy volumes

llc-tools

Decorators to make it easier to write SciPy LowLevelCallables

affinder

Quickly find the affine matrix mapping one image to another using manual correspondence points annotation

streaming-talk

Resources for a talk about streaming data analysis in Python

napariboard-proto

Prototype implementation of napari-integrated CNN training viewer

Jupyter Notebook

zarpaint

Paint segmentations directly to on-disk/remote zarr arrays

jax-workshop

Jupyter Notebook

h5cat

Quick preview of HDF5 files on the command line

mysquishy

Recompress zarr chunks in-place

git-tutorial

Notes for a workshop on using git and github

lma-2021-bioimage-analysis-python

"Bioimage analysis in Python" workshop at LMA2021

Jupyter Notebook

using-python-for-science

The essential guide to using Python for scientists

functional-programming-in-python

Functional programming in Python talk at Linux Conf Australia 2016

Jupyter Notebook

ipython-config

A config file to keep up with the endless updates from the iPython team.

viridis

A tree library for Python

halfway-to-i2k-skimage-napari

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

lesion

Quantify recovery of spinal cord lesions in zebrafish embryos

blob-explorer

Cluster image snippets in an interactive scatterplot and view them

i2k-skimage-napari

Repository for the scikit-image, napari, & friends tutorial at I2K 2020

Jupyter Notebook

mpl-volume-viewer

Simple matplotlib-based volume (3D image) viewer

Jupyter Notebook

pia-tracking

Scripts to work with Pia Larsson's platelet tracking data

napari-midi

Control napari with a USB midi controller

scikit-image-book

Jupyter Notebook

platelet-unet-watershed

skan-talk-scipy-2019

Materials for my talk at SciPy 2019

Jupyter Notebook

aspp2015

Lecture materials for ASPP 2015 in Munich

Jupyter Notebook

sony-digital-paperpile

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

fiji-python

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

numpy-skimage-tutorial

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

explode-view

Show exploded view of an image.

cellom2tif

Python command line interface to convert Cellomics .C01 files to TIFF.

spectral-graphs

Some tools to do spectral graph analysis in Python

jni.github.io

The home page of Juan Nunez-Iglesias

performance-tests

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

gel

GEL superpixels: iterative geodesic expansion of labels and recentering

osx-prefs

Command line OSX preferences setup.

skeletons

Tools to explore skeletonisation methods in 3D

aspp2017-numpy-solutions

Solutions for the NumPy tutorial in ASPP 2017

Jupyter Notebook

aspp-2017-cython-solutions

Solutions for the ASPP 2017 Cython course

Jupyter Notebook

statutes

Statistical utilities

scipy-japan-2020

Repo for SciPy Japan 2020 talk

aspp-2017-cython

Lecture materials for ASPP 2017 in Nikiti, Greece

Jupyter Notebook

betamax

Estimating optimal sampling strategies for high-throughput screens

scientific-programming-in-Python

How to use Python for scientific work

bashrc

My .bashrc file

my-documents

A haphazard collection of writing.

skan-scripts

Some scripts and data for skeleton analysis with Python

gaest

Genetic algorithms to clutser expressed sequence tags

synapse-geometry

Examine features of synapse geometry in EM segmentation data

unfold-embryo

Unfold an image along an anterior-posterior axis defined by fluorescence

aspp2017-numpy

Lecture materials for ASPP 2017 in Nikiti, Greece

Jupyter Notebook