Pinned Repositories
covidcurve
Fitting the curve that we are trying to flatten
devenv
Personal developer environments
gelnet
Generalized Elastic Nets
indRa
R bindings to indra.bio
PanCanStem
synExtra
Extension of `synapser`, a Synapse R client developed by Sage Bionetworks
DRIAD
Drug Repurposing in Alzheimer's Disease
mcmicro
Multiple-choice microscopy pipeline
paired-eval
Fast implementation of paired eval
MITI
Minimum Information about Tissue Imaging
ArtemSokolov's Repositories
ArtemSokolov/synExtra
Extension of `synapser`, a Synapse R client developed by Sage Bionetworks
ArtemSokolov/PanCanStem
ArtemSokolov/devenv
Personal developer environments
ArtemSokolov/ord-work
Workspace for ordinalRidge
ArtemSokolov/ashlar
ASHLAR: Alignment by Simultaneous Harmonization of Layer/Adjacency Registration
ArtemSokolov/brca-profiling
ArtemSokolov/brca-work
Workspace for breast cancer profiling
ArtemSokolov/csc-work
Workspace for cell state calling
ArtemSokolov/cylinter
An Interactive Image Segmentation Filter for Multiplex Microscopy
ArtemSokolov/Cypository
ArtemSokolov/deepcell-applications
Run DeepCell Applications
ArtemSokolov/DGEsig
ArtemSokolov/hackathon2022-prep
Team assignments for the IAWG Hackathon 2022
ArtemSokolov/mcmicro
Multiple-choice microscopy pipeline
ArtemSokolov/mcmicro-ilastik
Ilastik segmentation module for mcmicro
ArtemSokolov/mcmicro-images
MINERVA data overviews for https://www.synapse.org/MCMICRO_images
ArtemSokolov/mcmicro-scanpy
An MCMICRO module implementation of scanpy for clustering cells
ArtemSokolov/MERlin
MERlin is an extensible analysis pipeline applied to decoding MERFISH data
ArtemSokolov/miccheck
Container definition for testing mcmicro
ArtemSokolov/MITI
Minimum Information about Tissue Imaging
ArtemSokolov/ordinalRidge
Fast solver for ordinal logistic regression with a ridge penalty
ArtemSokolov/paired-eval
Fast implementation of paired eval
ArtemSokolov/PILOT
Detection of PatIent-Level distances from single cell genomics and pathomics data with Optimal Transport (PILOT)
ArtemSokolov/quantification
Quantification module for mcmicro
ArtemSokolov/RS-FISH
Tool for precise, interactive, fast and scalable FISH spot detection
ArtemSokolov/S3segmenter
ArtemSokolov/scope2screen
Scope2Screen is an open-source web-application for focus+context exploration and annotation of whole-slide, high-plex, tissue images.
ArtemSokolov/tools
Tool containers
ArtemSokolov/UNetCoreograph
Python version of Coreograph
ArtemSokolov/UnMicst
UNet script, model, sample data