Ecosyste.ms: Awesome
An open API service indexing awesome lists of open source software.
Projects in Awesome Lists by jni
A curated list of projects in awesome lists by jni .
https://github.com/jni/skan
Python module to analyse skeleton (thin object) images
Last synced: 30 Sep 2024
https://github.com/jni/scipy-japan-2019
NumPy tutorial given at SciPy Japan 2019
Last synced: 01 Oct 2024
https://github.com/jni/ray
Automatic segmentation of electron microscopy volumes
Last synced: 01 Oct 2024
https://github.com/jni/llc-tools
Decorators to make it easier to write SciPy LowLevelCallables
Last synced: 01 Oct 2024
https://github.com/jni/streaming-talk
Resources for a talk about streaming data analysis in Python
Last synced: 01 Oct 2024
https://github.com/jni/affinder
Quickly find the affine matrix mapping one image to another using manual correspondence points annotation
Last synced: 01 Oct 2024
https://github.com/jni/napariboard-proto
Prototype implementation of napari-integrated CNN training viewer
Last synced: 01 Oct 2024
https://github.com/jni/zarpaint
Paint segmentations directly to on-disk/remote zarr arrays
Last synced: 01 Oct 2024
https://github.com/jni/h5cat
Quick preview of HDF5 files on the command line
Last synced: 01 Oct 2024
https://github.com/jni/git-tutorial
Notes for a workshop on using git and github
Last synced: 01 Oct 2024
https://github.com/jni/lma-2021-bioimage-analysis-python
"Bioimage analysis in Python" workshop at LMA2021
Last synced: 01 Oct 2024
https://github.com/jni/functional-programming-in-python
Functional programming in Python talk at Linux Conf Australia 2016
Last synced: 01 Oct 2024
https://github.com/jni/using-python-for-science
The essential guide to using Python for scientists
Last synced: 01 Oct 2024
https://github.com/jni/lesion
Quantify recovery of spinal cord lesions in zebrafish embryos
Last synced: 01 Oct 2024
https://github.com/jni/ipython-config
A config file to keep up with the endless updates from the iPython team.
Last synced: 01 Oct 2024
https://github.com/jni/i2k-skimage-napari
Repository for the scikit-image, napari, & friends tutorial at I2K 2020
Last synced: 01 Oct 2024
https://github.com/jni/mpl-volume-viewer
Simple matplotlib-based volume (3D image) viewer
Last synced: 01 Oct 2024
https://github.com/jni/blob-explorer
Cluster image snippets in an interactive scatterplot and view them
Last synced: 01 Oct 2024
https://github.com/jni/halfway-to-i2k-skimage-napari
Repo for halfway to i2k workshop: Fundamentals of image analysis in Python with scikit-image, napari, and friends
Last synced: 01 Oct 2024
https://github.com/jni/skan-talk-scipy-2019
Materials for my talk at SciPy 2019
Last synced: 01 Oct 2024
https://github.com/jni/pia-tracking
Scripts to work with Pia Larsson's platelet tracking data
Last synced: 01 Oct 2024
https://github.com/jni/napari-midi
Control napari with a USB midi controller
Last synced: 01 Oct 2024
https://github.com/jni/sony-digital-paperpile
A synchronisation tool between Paperpile's Google Drive structure and Sony Digital Paper using Box's WebDAV.
Last synced: 01 Oct 2024
https://github.com/jni/cellom2tif
Python command line interface to convert Cellomics .C01 files to TIFF.
Last synced: 01 Oct 2024
https://github.com/jni/fiji-python
Template project to make Python command-line tools to be run by Fiji
Last synced: 01 Oct 2024
https://github.com/jni/numpy-skimage-tutorial
A quick tutorial of NumPy and scikit-image for the COMBINE Python workshop, 2014-11-27
Last synced: 01 Oct 2024
https://github.com/jni/gaest
Genetic algorithms to clutser expressed sequence tags
Last synced: 01 Oct 2024
https://github.com/jni/skeletons
Tools to explore skeletonisation methods in 3D
Last synced: 01 Oct 2024
https://github.com/jni/gel
GEL superpixels: iterative geodesic expansion of labels and recentering
Last synced: 01 Oct 2024
https://github.com/jni/aspp-2017-cython
Lecture materials for ASPP 2017 in Nikiti, Greece
Last synced: 01 Oct 2024
https://github.com/jni/aspp2017-numpy-solutions
Solutions for the NumPy tutorial in ASPP 2017
Last synced: 01 Oct 2024
https://github.com/jni/skan-scripts
Some scripts and data for skeleton analysis with Python
Last synced: 01 Oct 2024
https://github.com/jni/aspp-2017-cython-solutions
Solutions for the ASPP 2017 Cython course
Last synced: 01 Oct 2024
https://github.com/jni/performance-tests
A collection of benchmarks to answer Python (initially) performance questions
Last synced: 01 Oct 2024
https://github.com/jni/aspp2017-numpy
Lecture materials for ASPP 2017 in Nikiti, Greece
Last synced: 01 Oct 2024
https://github.com/jni/synapse-geometry
Examine features of synapse geometry in EM segmentation data
Last synced: 01 Oct 2024
https://github.com/jni/betamax
Estimating optimal sampling strategies for high-throughput screens
Last synced: 01 Oct 2024
https://github.com/jni/unfold-embryo
Unfold an image along an anterior-posterior axis defined by fluorescence
Last synced: 01 Oct 2024
https://github.com/jni/spectral-graphs
Some tools to do spectral graph analysis in Python
Last synced: 01 Oct 2024
https://github.com/jni/useful-histories
My repository for particularly useful analyses carried out in IPython (not the notebook)
Last synced: 01 Oct 2024
https://github.com/jni/scientific-programming-in-python
How to use Python for scientific work
Last synced: 01 Oct 2024
https://github.com/jni/rf-ciw-rsnn-numpy
A NumPy implementation of the method of McDonnell et al, PLoS One, 2015
Last synced: 01 Oct 2024
https://github.com/jni/special-scripts
Collection of scripts that don't fit elsewhere
Last synced: 01 Oct 2024
https://github.com/jni/ont
Random collection of useful functions (to me) that haven't (yet) found a better home
Last synced: 01 Oct 2024
https://github.com/jni/napari-talk-scipy-2023
notebook and (eventually) slides from scipy 2023 talk
Last synced: 01 Oct 2024
https://github.com/jni/config
A master repository for all my configuration files
Last synced: 01 Oct 2024
https://github.com/jni/trf1-quantification
Scripts to quantify fluorescence on the ends of telomeres.
Last synced: 01 Oct 2024
https://github.com/jni/storm-cluster
Clustering of STORM detections to determine particle bundling in samples
Last synced: 01 Oct 2024
https://github.com/jni/napari-vesuvius
napari plugin to work with Vesuvius Challenge data
Last synced: 01 Oct 2024
https://github.com/jni/slic-counter
Count fluorescent cells using SLIC superpixels.
Last synced: 01 Oct 2024
https://github.com/jni/napari-defdap
Simple wrapper around DefDAP functionality
Last synced: 01 Oct 2024
https://github.com/jni/skimage-paper-peerj
the scikit-image paper manually formatted for PeerJ
Last synced: 01 Oct 2024
https://github.com/jni/python-in-neuroscience-paper
Paper repository for Frontiers in Neuroinformatics: Python in Neuroscience II submission
Last synced: 01 Oct 2024
https://github.com/jni/mbs-dataviz
Data visualisation examples and exercises
Last synced: 01 Oct 2024
https://github.com/jni/flatten
Flatten files in nested subdirectories into a single directory.
Last synced: 01 Oct 2024
https://github.com/jni/useful-tools
Various bits and bobs that I have found useful
Last synced: 01 Oct 2024
https://github.com/jni/pyqt-book
Working through the Python applications with Qt book
Last synced: 01 Oct 2024
https://github.com/jni/napari-demos
Scripts to demonstrate napari with real data
Last synced: 01 Oct 2024
https://github.com/jni/planets
Notes on the suitability of various planets for a crewed mission.
Last synced: 01 Oct 2024
https://github.com/jni/gene-beacon
Find a transgene by sequencing out from the ends and matching to a reference genome
Last synced: 01 Oct 2024
https://github.com/jni/github-bisect
Use git bisect automatically, only examining merge commits
Last synced: 01 Oct 2024
https://github.com/jni/maths.py
A tiny example project to minimally illustrate Travis and Coveralls.
Last synced: 01 Oct 2024
https://github.com/jni/condarc
My configuration file for the conda package management system.
Last synced: 01 Oct 2024
https://github.com/jni/framework-python-fail
A minimal example to demonstrate the need for a framework Python build in conda-forge and Anaconda
Last synced: 01 Oct 2024
https://github.com/jni/gala-scripts
Scripts to run experiments in image segmentation using gala
Last synced: 01 Oct 2024
https://github.com/jni/genome-scripts
Various Python-based tools for analysing genome data
Last synced: 01 Oct 2024
https://github.com/jni/gala-notebooks
A collection of Jupyter notebooks exploring the gala segmentation library
Last synced: 01 Oct 2024
https://github.com/jni/autopilot
Automatically schedule events and activities
Last synced: 01 Oct 2024
https://github.com/jni/interactive-prog-python
Code for Coursera course, interactive programming with Python
Last synced: 01 Oct 2024
https://github.com/jni/learn-you-a-haskell
My trials and tribulations learning Haskell
Last synced: 01 Oct 2024
https://github.com/jni/aio
Solutions to the Australian Informatics Olympiad team training exercises
Last synced: 01 Oct 2024
https://github.com/jni/blog-notebooks
Jupyter notebooks destined for my blog
Last synced: 01 Oct 2024