Juan Nunez-Iglesias

skan. Python module to analyse skeleton (thin object) images

scipy-japan-2019. NumPy tutorial given at SciPy Japan 2019

ray. Automatic segmentation of electron microscopy volumes

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

llc-tools. Decorators to make it easier to write SciPy LowLevelCallables

zarpaint. Paint segmentations directly to on-disk/remote zarr arrays

streaming-talk. Resources for a talk about streaming data analysis in Python

napariboard-proto. Prototype implementation of napari-integrated CNN training viewer

h5cat. Quick preview of HDF5 files on the command line

jax-workshop. Jupyter Notebook

git-tutorial. Notes for a workshop on using git and github

mysquishy. Recompress zarr chunks in-place

using-python-for-science. The essential guide to using Python for scientists

lma-2021-bioimage-analysis-python. "Bioimage analysis in Python" workshop at LMA2021

functional-programming-in-python. Functional programming in Python talk at Linux Conf Australia 2016

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

lesion. Quantify recovery of spinal cord lesions in zebrafish embryos

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

blob-explorer. Cluster image snippets in an interactive scatterplot and view them

mpl-volume-viewer. Simple matplotlib-based volume (3D image) viewer

i2k-skimage-napari. Repository for the scikit-image, napari, & friends tutorial at I2K 2020

platelet-unet-watershed. Python

pia-tracking. Scripts to work with Pia Larsson's platelet tracking data

scikit-image-book. Jupyter Notebook

skan-talk-scipy-2019. Materials for my talk at SciPy 2019

napari-midi. Control napari with a USB midi controller

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

napari. Napari PyQt5 and VisPy based GUI plugin

explode-view. Show exploded view of an image.

useful-histories. My repository for particularly useful analyses carried out in IPython (not the notebook)

programming-languages-in-astronomy. Analysis of programming language mentions in astronomy papers in ADS

gel. GEL superpixels: iterative geodesic expansion of labels and recentering