Joshua Gould's repositories
canvas2pdf
Export your HTML canvas to PDF
OpenSeadragonCanvasOverlayHd
An OpenSeadragon plugin that adds canvas overlay capability in HD and supports multi-images.
cellphonedb-chord
Draw a chord diagram from cellphonedb output
scatter-gl
Interactive 3D / 2D webgl-accelerated scatter plot point renderer
aicsimageio
Image Reading, Metadata Conversion, and Image Writing for Microscopy Images in Python
ashlar
ASHLAR: Alignment by Simultaneous Harmonization of Layer/Adjacency Registration
bfio
Interface to the Bioformats Java library
centrosome
An open source image processing library
ome-zarr-py
Implementation of next-generation file format (NGFF) specifications for storing bioimaging data in the cloud.
OpticalPooledScreens
Code and examples for optical pooled screens (updated protocol).
dask_relabeling
A relabeling tool for tiled segmentation with Dask
imreg_dft
Image registration using discrete Fourier transform.
probreg
Python package for point cloud registration using probabilistic model (Coherent Point Drift, GMMReg, SVR, GMMTree, FilterReg, Bayesian CPD)
scanpy
Single-cell analysis in Python. Scales to >1M cells.
spatialdata
An open and interoperable data framework for spatial omics data
vitessce
Vitessce is a visual integration tool for exploration of spatial single-cell experiments.
winstanley
An IntelliJ Plug-in for WDL