johapark's Stars
InsightSoftwareConsortium/ITKElastix
An ITK Python interface to elastix, a toolbox for rigid and nonrigid registration of images
balbasty/torch-interpol
High-order spline interpolation in PyTorch
balbasty/nitorch
Neuroimaging in PyTorch
VolkerH/DaskFusion
Fusing image tiles with dask array's map_blocks
sbarratt/torch_interpolations
Interpolation routines in Pytorch.
hms-dbmi/viv
Library for multiscale visualization of high-resolution multiplexed bioimaging data on the web. Directly renders Zarr and OME-TIFF.
AltschulerWu-Lab/MUSE
MUSE is a deep learning approach characterizing tissue composition through combined analysis of morphologies and transcriptional states for spatially resolved transcriptomics data.
dpeerlab/PhenoGraph
Subpopulation detection in high-dimensional single-cell data
scverse/scvi-tools
Deep probabilistic analysis of single-cell and spatial omics data
zalo/MathUtilities
A collection of some of the neat math and physics tricks that I've collected over the last few years.
adalca/neurite
Neural networks toolbox focused on medical image analysis
snakemake/snakemake
This is the development home of the workflow management system Snakemake. For general information, see
facebookresearch/fairseq
Facebook AI Research Sequence-to-Sequence Toolkit written in Python.
bbrister/SIFT3D
Analogue of the scale-invariant feature transform (SIFT) for three-dimensional images. Includes an image processing and linear algebra library with feature matching and RANSAC regression. Also includes IO functions supporting a variety of image formats.
XuyangBai/awesome-point-cloud-registration
A curated list of point cloud registration.
torch-points3d/torch-points3d
Pytorch framework for doing deep learning on point clouds.
ome/ngff
Next-generation file format (NGFF) specifications for storing bioimaging data in the cloud.
modernatx/seqlike
Unified biological sequence manipulation in Python
rusty1s/pytorch_spline_conv
Implementation of the Spline-Based Convolution Operator of SplineCNN in PyTorch
biomedia-mira/istn
Image-and-Spatial Transformer Networks
multiFISH/EASI-FISH
Tools and scripts for EASI-FISH image data analysis
tueimage/gryds
A Python package for geometric transformations of images for data augmentation in deep learning
dask/dask-tutorial
Dask tutorial
seandavi/awesome-single-cell
Community-curated list of software packages and data resources for single-cell, including RNA-seq, ATAC-seq, etc.
google/neuroglancer
WebGL-based viewer for volumetric data
wan2land/unchartedwaters2
대항해시대2를 웹으로 편하게 즐기자!
airlab-unibas/airlab
Image registration laboratory for 2D and 3D image data
ActiveBrainAtlas/MouseBrainAtlas
A system for building mouse brain atlas from histology series
matthew-brett/transforms3d
3 dimensional spatial transformations
jw4hv/deepflash
Supervised Predictive Medical Image Registration Model