paularstrpo

Paula Restrepo's starred repositories

DeepTalk

Deciphering cell-cell communication from spatially resolved transcriptomic data at single-cell resolution with subgraph-based attentional graph neural network

Language:Jupyter NotebookMIT1000

escape

Easy single cell analysis platform for enrichment

Language:RMIT13600

singleCellTK

Interactively analyze single cell genomic data

Language:RNOASSERTION17400

ggstar

:star: star layer for ggplot2

Language:R9700

Banksy

BANKSY: spatial clustering

Language:RNOASSERTION6000

BaysorAnalysis

Analysis for the Baysor paper

Language:Jupyter NotebookMIT500

vizgen-segmentation

Language:Jupyter NotebookGPL-3.0100

xenium-segmentation

Language:Jupyter NotebookGPL-3.0300

docker2singularity

A docker image for converting docker images to singularity images.

Language:ShellMIT27700

moscot

Multi-omic single-cell optimal transport tools

Language:PythonBSD-3-Clause10600

zotero-memento

Zotero extension that combats link rot by archiving webpages and journal articles.

Language:JavaScriptMIT28500

zotero-folder-import

Language:TypeScript31500

qupath-extension-stardist

QuPath extension to run StarDist nucleus detection

Language:JavaApache-2.03300

qupath-extension-cellpose

an extension that wraps a Cellpose environment such that WSI can be analyzed using Cellpose through QuPath.

Language:Jupyter NotebookApache-2.05800

DigPath

Language:Groovy100

GPTCelltype

Language:HTMLMIT14000

scPower

Experimental design framework for scRNAseq population studies (eQTL and DE)

Language:R4400

MOFA2

Multi-Omics Factor Analysis

Language:RLGPL-3.028700

rcna

R implementation of the Reshef and Rumker CNA method (https://github.com/immunogenomics/cna)

Language:R1300

cna

Covarying neighborhood analysis (CNA) is a method for finding structure in- and conducting association analysis with multi-sample single-cell datasets.

Language:PythonGPL-3.04500