Howard Hughes Medical Institute
GitHub organization maintained by Scientific Computing Software at HHMI's Janelia Research Campus for use by HHMI staff and external collaborators.
19700 Helix Drive, Ashburn, VA 20147
Pinned Repositories
bigstream
Tools for distributed alignment of massive images
JRCLUST
JRCLUST
multifish
EASI-FISH analysis pipeline for spatial transcriptomics
NIDAQ.jl
National Instruments Data Acquisition Interface
osgpyplusplus
Python bindings for OpenSceneGraph 3D graphics API, created using Boost.Python and Py++
SharkViewer
SharkViewer is a web-based viewer for SWC neuron files. It is written entirely in JavaScript using Three.js.
SongExplorer
deep learning for acoustic signals
Wavesurfer
A Matlab application for electrophysiology data analysis
workstation
Janelia Workstation
xarray-multiscale
scalable multiscale image pyramids in python
Howard Hughes Medical Institute's Repositories
JaneliaSciComp/Wavesurfer
A Matlab application for electrophysiology data analysis
JaneliaSciComp/Morton.jl
convert between Z-order, Cartesian, and quadtree/octree coordinates
JaneliaSciComp/nextflow-spark
JaneliaSciComp/UInt12Arrays.jl
Julia package for supporting arrays of 12-bit integers
JaneliaSciComp/ray-janelia
Run Python Ray on the Janelia cluster
JaneliaSciComp/bigdataviewer-core-movie-producer
ImgLib2-based viewer for registered SPIM stacks and more
JaneliaSciComp/tpt
A tentative Python toolbox
JaneliaSciComp/video_grid
Display many small videos in a grid
JaneliaSciComp/BDV-Movie-Producer-Spark
JaneliaSciComp/BransonFlyDiscoSettings
Branson Lab settings folder for FlyDiscoAnalysis
JaneliaSciComp/burst-compute-example
JaneliaSciComp/confocal-lens
Correcting lens-distortion in confocal stacks
JaneliaSciComp/dask-janelia
Dask deployment for the Janelia Compute Cluster
JaneliaSciComp/exllsm-synapse-detector
Deep Neuron Network for synapse detection
JaneliaSciComp/HDF5.jl
Save and load data in the HDF5 file format from Julia
JaneliaSciComp/HDF5_Vibez
HDF5 plugin for ImageJ and Fiji.
JaneliaSciComp/HDF5Plugin-Zstandard
Zstandard compression plugin for HDF5
JaneliaSciComp/idservice
Returns unique, monotonically increasing uint64 integers
JaneliaSciComp/ijava-binder-dockerfile
Dockerfile for running the IJava kernel in Jupyter notebook in Binder
JaneliaSciComp/janus
Branched versioning for nD chunks of data
JaneliaSciComp/jhdf5
Java HDF5 Bindings from https://sissource.ethz.ch/sispub/jhdf5
JaneliaSciComp/MatrixMicroscopeUtils.jl
Utilities for the Matrix Microscope developed by @raghavchhetri in Philipp Keller's Lab at Janelia
JaneliaSciComp/neuronbridge-precompute-scripts
scripts for running colormipsearch workflow
JaneliaSciComp/open-data-mouselight
MouseLight Gen1 Imagery hosted on AWS Open Data
JaneliaSciComp/paintera-versioned
JaneliaSciComp/sis-base-java
Mirror of https://sissource.ethz.ch/sispub/base
JaneliaSciComp/split-screen-video
Combines sets of frames into a video with expansion of sparse frame sampling.
JaneliaSciComp/tethered-fly-pipeline
Nextflow pipeline for processing tethered fly videos using APT
JaneliaSciComp/UInt24_to_UInt12_Converter
FIJI ImageJ 1 Plugin to convert 24-bit pixels to 2x 12-bit pixels
JaneliaSciComp/workstation-website
Brochure website for the Janelia Workstation