Lazy Parallel Processing and Visualization of Large Data with ImgLib2, BigDataViewer, the N5-API, and Spark
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cache (1)
cell (1)
conda (1)
hdf5 (1)
ijava (1)
imglib2 (5)
java (3)
jupyter (6)
lazy (1)
n5 (2)
notebook (5)
quarto (1)
spark (1)
zarr (1)

 

Setup instructions

conda
java
ijava
jupyter
quarto
How to get started …
Oct 17, 2024
Stephan Saalfeld

ImgLib2 is lazy

imglib2
jupyter
notebook
… very, very lazy, like … everywhere!
Oct 17, 2024
Stephan Saalfeld, Tobias Pietzsch

N5 API

imglib2
java
n5
hdf5
zarr
jupyter
notebook
Read and write ImgLib2 data with the N5 API.
Oct 17, 2024
Stephan Saalfeld

Lazy image processing with ImgLib2 cache

imglib2
jupyter
notebook
cache
lazy
cell
… by defining the processing operations over cells.
Oct 17, 2024
Stephan Saalfeld

Using the ImgLib2 blocks API

imglib2
java
n5
jupyter
notebook
Using the ImgLib2 blocks API for downsampling and convolution
Oct 17, 2024
Tobias Pietzsch

 

Lazy processing with ImgLib2 and Spark

imglib2
jupyter
notebook
spark
Working around (lack of) serialization.
Oct 17, 2024
Stephan Saalfeld
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