bencardoen
Computational scientist developing novel algorithms to discover biological function from nanoscale multichannel superresolution microscopy.
University of British Columbia, Nabi LabVancouver
Pinned Repositories
bhattacharyya_distance
DataCurator.jl
A scalable Julia package to transparently validate and transform large biomedical datasets using human readable recipes that are translated to machine verifiable templates.
ERGO.jl
Object / density detection in astigmatic superresolution dSTORM microscopy
imaris_reader
paper_reviews
singularity_julia
Template definition file for Singularity RO containers with Julia and user package embedded.
singularity_slurm_cuda
Example on how to get started with Singularity and CUDA on a SLURM cluster
smlmvis
Superresolution visualization of 3D protein localization data from a range of microscopes
SPECHT.jl
SPECHT is a Julia implementation of a contrastive weakly supervised object detection and identification method for fluorescence microscopy.
SubPrecisionContactDetection.jl
A Julia package to detect contacts below the precision of a superresolution microscope between 2 subcellular organelles in 2-channel superresolution (STED) microscopy.
bencardoen's Repositories
bencardoen/DataCurator.jl
A scalable Julia package to transparently validate and transform large biomedical datasets using human readable recipes that are translated to machine verifiable templates.
bencardoen/singularity_slurm_cuda
Example on how to get started with Singularity and CUDA on a SLURM cluster
bencardoen/smlmvis
Superresolution visualization of 3D protein localization data from a range of microscopes
bencardoen/SPECHT.jl
SPECHT is a Julia implementation of a contrastive weakly supervised object detection and identification method for fluorescence microscopy.
bencardoen/singularity_julia
Template definition file for Singularity RO containers with Julia and user package embedded.
bencardoen/SubPrecisionContactDetection.jl
A Julia package to detect contacts below the precision of a superresolution microscope between 2 subcellular organelles in 2-channel superresolution (STED) microscopy.
bencardoen/bhattacharyya_distance
bencardoen/ERGO.jl
Object / density detection in astigmatic superresolution dSTORM microscopy
bencardoen/imaris_reader
bencardoen/paper_reviews
bencardoen/cedartutorial
Tips on how to leverage Compute Canada's HPC (Cedar) in your research.
bencardoen/clusim
An extended package for clustering similarity
bencardoen/Colocalization.jl
Colocalization metrics and distances for images or their sparse representations.
bencardoen/CSRM
Mirror of https://bencardoen@bitbucket.org/bcardoen/csrm.git
bencardoen/deep_loco
sample implementation of deeploco
bencardoen/devs-ex-machina
A PDEVS C++ parallel simulator. supporting multiple synchronization paradigms
bencardoen/ERGO
ERGO: Efficient Recurrent Graph Optimized Emitter Density Estimation in Single Molecule Localization Microscopy
bencardoen/ERGO.py
bencardoen/lab_tools
bencardoen/labtools
Set of utility scripts to ease remote mounting / ssh / data sync etc
bencardoen/launchjobs
Python script that runs arbitrary shell commands in parallel (for cluster/SLURM) usage
bencardoen/LogParadox.jl
Detects sufficient and necessary conditions for pattern inversion conditional on log transform
bencardoen/nbr
bencardoen/resources
Common resources used in scientific writing
bencardoen/sciparpy
bencardoen/SlurmMonitor.jl
A monitor for SLURM HPC schedulers that notifies on preset conditions (downtime, latency) and connects to Slack (optional)
bencardoen/SmlmTools.jl
Computational tools for single molecule localization / superresolution microscopy (point clouds).
bencardoen/srm_threshold
bencardoen/testccimac
bencardoen/testm1