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Holy Lab (@HolyLab)

HolyLab

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HolyLabRegistry

Julia package registry for the Holy lab at Washington University in St. Louis

RegisterQD.jl

Image registration with the QuadDIRECT optimization algorithm

FlyThroughPaths.jl

Create "fly-throughs" in 3d visualization

RegisterDeformation.jl

Representation of spatial deformations

GPCRAnalysis.jl

Routines for analysis of protein structures

BlockRegistration.jl

Deformable image registration via shift-alignment of blocks

ClusteringBenchmarks.jl

Data sets and metrics to evaluate clustering algorithms

GaussianRandomVariables.jl

Math (second-order accuracy) with random variables

ImagineHardware.jl

Access hardware information for essential microscope components used in OCPI microscopes: piezo positioners, amplifiers, cameras, etc

ZWarpedArrays.jl

An image array type for which each 2D slice can (lazily) undergo a different affine coordinate transformation

CachedArrays.jl

Arrays that cache elements in leading dimensions

FastScanning.jl

Determine camera/laser timing during fast OCPI acquisitions based on measured hardware responses.

RegisterMismatch.jl

This package is separated from BlockRegistraton.

InterleavedImages.jl

Lazy interleaving of images (arrays) along a chosen dimension

RegisterOptimize.jl

This package is separated from BlockRegistraton.

ExtractPSF.jl

Find point emitters in images and extract point spread functions

RFFT.jl

In-place real FFTs for Julia

ImagineInterface.jl

Read and write Imagine analog and digital recordings and commands

GsvdInitialization.jl

Discovery of "missing" directions in nonnegative matrix factorization

NMFMerge.jl

Merging components in nonnegative matrix factorization

RegisterWorkerShell.jl

This package is separated from BlockRegistratonScheduler.

EconomicChoice.jl

Utilities for analyzing neuroeconomic choice experiments

ImaginePlots.jl

Plotting of Imagine's hardware signals (complements ImagineInterface)

Diffusion.jl

Simulations of diffusion on the disc with boundary conditons

ImagineProcedures.jl

Link preparation with analysis of Imagine recordings

EcoTrialStructure.jl

Data import for experiments on neuroeconomic decision-making

ImageInterpLast.jl

Lazy interpolation of images along the last dimension (usually time)

StitchDPI.jl

Align and stitch pairs of images acquired with a split field of view

RegisterPenalty.jl

This package is separated from BlockRegistraton.

BlockRegistrationScheduler.jl

Multi-core image registration scheduler

Imagine

A graphical interface for recording with OCPI microscopes.

WarpedImageSeries.jl

Lazy warping of a series (usually timeseries) of images

RegisterCore.jl

Image registration (low-level types and utilities)

Imagine.jl

Work-in-progress translation of Imagine to Julia

FastScanningAndDPI

Directory of code for OCPI fast scanning / DPI publication

RegisterWorkerApertures.jl

This package is separated from BlockRegistratonScheduler.

CachedInterpolations.jl

CachedInterpolations implements a performance enhancement for quadratic interpolation of a large multidimensional array. This package is separated from BlockRegistration