Pinned Repositories
bmtrap_2021
gwdt
Grey-weighted distance transform
leica2tif
A quick command-line tool to convert Leica files to TIF.
nuggt
NeUroGlancer Ground Truth - annotate cell centers
pavlidis
The Pavlidis algorithm for contour tracing
phathom
Phenotypic analysis of brain tissue at single-cell resolution
precomputed-tif
A simple utility to generate a precomputed data source as TIF files along with a simple HTTP server of those files.
pystripe
An image processing package for removing streaks from SPIM images
scout
Multiscale hyperdimensional phentypic analysis of organoids
shield-2018
Repo for software used in the Chung Lab's Shield paper
Chung Lab's Repositories
chunglabmit/pystripe
An image processing package for removing streaks from SPIM images
chunglabmit/nuggt
NeUroGlancer Ground Truth - annotate cell centers
chunglabmit/scout
Multiscale hyperdimensional phentypic analysis of organoids
chunglabmit/leica2tif
A quick command-line tool to convert Leica files to TIF.
chunglabmit/bmtrap_2021
chunglabmit/gwdt
Grey-weighted distance transform
chunglabmit/blockfs
A 3D block file storage system optimized for multiprocessing
chunglabmit/phathom
Phenotypic analysis of brain tissue at single-cell resolution
chunglabmit/precomputed-tif
A simple utility to generate a precomputed data source as TIF files along with a simple HTTP server of those files.
chunglabmit/shield-2018
Repo for software used in the Chung Lab's Shield paper
chunglabmit/ceph-smartctl
Uses smartctl to check for failed CEPH drives
chunglabmit/mp_shared_memory
A shared-memory wrapper backwards compatible with Python < 3.8
chunglabmit/shield-2018-assets
Binary assets for shield-2018 docker image
chunglabmit/spimstitch
Stitch images taken on a diagonal using the SPIM microscope
chunglabmit/zheight
A utility for displaying a 2D contour map of the z-height of a tissue cut
chunglabmit/morphet
chunglabmit/tsv
Library to render terastitched volumes
chunglabmit/araw2tif
A utility for backing up .raw files to .tif
chunglabmit/axon-centerline-detection
chunglabmit/beegfsmonitor
A UI for displaying telemetry data from beegfs-mon
chunglabmit/chunglab_dz
Blockfs to deep zoom translator for the chunglab website.
chunglabmit/dandi-io
Remote access to dandisets
chunglabmit/data-processing-tools
Various data processing tools developed by Nick D. as pipeline practice
chunglabmit/eflash_2018
chunglabmit/pacqproc
Post-acquisition processing pipelines for light-sheet microscopy
chunglabmit/psviewer
Pre-stitched viewer of light sheet images
chunglabmit/pystripe-ui
User interface for crafting scripts for running PyStripe
chunglabmit/rigid-rotate
A React web-app for rotating two volumes into rough alignment
chunglabmit/rotate2d
A quick GUI for rotating ZARR files in 2D.
chunglabmit/unslice