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/xarray-multiscale
scalable multiscale image pyramids in python
JaneliaSciComp/SymmetricFormats.jl
efficient storage for symmetric matrices
JaneliaSciComp/awesome-janelia-software
A curated list of awesome Janelia software
JaneliaSciComp/exllsm-circuit-reconstruction
Nextflow pipeline encapsulating workflows for analyzing expansion lattice light-sheet microscopy (ExLLSM) imagery
JaneliaSciComp/hortacloud
HortaCloud - 3D annotation platform for large microscopy data
JaneliaSciComp/ColorMIP_Mask_Search
ColorMIP_Mask_Search plugin for Fiji
JaneliaSciComp/figleaf
Tool for data publication on figshare. Just getting off the ground.
JaneliaSciComp/spark-janelia
scripts for using spark on janelia's cluster
JaneliaSciComp/image_processing_pipeline
Interface to configure pipeline jobs for LightSheet
JaneliaSciComp/KLEIO-Python-SDK
JaneliaSciComp/peeling
JaneliaSciComp/PointMatchExplorer
Point Match Explorer for FlyTEM
JaneliaSciComp/lightsheetrecon
JaneliaSciComp/n5-inspector
Inspector for NGFF-style containers supported by the N5 API (N5, HDF5, OME-Zarr)
JaneliaSciComp/nextflow-dask
JaneliaSciComp/python-dist-demo
Tests of bundling Python scripts and dependencies into stand-alone executables.
JaneliaSciComp/spinnaker
A Bonsai library for interfacing with FLIR cameras using the Spinnaker SDK
JaneliaSciComp/3D-fiber-auto-segmentation
3D fiber structure auto segmentation. Adjusted for Fly brain/VNC
JaneliaSciComp/configurator
JaneliaSciComp/open-data-flylight
FlyLight Gen1 and Split-GAL4 Imagery hosted on AWS Open Data
JaneliaSciComp/bigstream-data
Testdata for bigstream
JaneliaSciComp/bigstream-multifish
Tools for distributed alignment of massive images
JaneliaSciComp/C-Elegans-Model-Generation
Code to generate C. Elegans Models
JaneliaSciComp/chipseq
ChIP-seq peak-calling, QC and differential analysis pipeline.
JaneliaSciComp/CompoundRayTest
JaneliaSciComp/hortacloud-utilities
JaneliaSciComp/jacs-storage
JADE file storage services
JaneliaSciComp/jhdf5-javacpp
JHDF5 adapter for JavaCPP HDF5
JaneliaSciComp/medulla_one_column
JaneliaSciComp/paintera-sam