cri-iatlas Goto Github PK

celesta

Automate unsupervised machine learning cell type identification using both protein expressions and cell spatial neighborhood information for multiplexed in situ imaging data. No training dataset with cell type labels is required.

cyjshiny

An R/shiny widget for cytoscape.js

discourse-docker-image

iatlas-app

R Shiny app for CRI iAtlas, an interactive web portal for exploring immuno-oncology data. (iAtlas portal 2022 and beyond)

iatlas-data

MOVED TO GITLAB -> https://gitlab.com/cri-iatlas/iatlas-data.git

iatlas-feather-files

iatlas-notebooks

Collection of R notebooks to enable local iAtlas plotting and functionality.

iatlas-workflows

cwl workflows for public tools

iatlas.api.client

iatlas.modules

iatlas.modules2

iatlasgraphqlclient

iatlasmanifests

iatlasschema

The data model schema for the iAtlas database

icgc

Repo for ICGC specific code

immunesubtypeclassifier

An R package for classification of immune subtypes, in cancer, using gene expression data.

irwg-tool-mitcr

Dockerized MiTCR tool for Dockstore

nf-pseudobulk

Nextflow pipeline to compute GSEA for pseudobulk scRNAseq

pret

rmarkdown-server

prototype HTTP server to dynamically render parameterized Rmarkdown files

rmarkdown-server-client

React-based client for presenting a friendly UI for the rmarkdown-server

shiny-dockstore-browser

shiny tool for browsing dockstore entries

shiny-heatmap-viewer

shiny-iatlas

An interactive web portal for exploring immuno-oncology data. This repo now superseded by iatlas-app

synapse-utils

Scripts for surveying, summarizing, and organizing PanImmune data in Synapse

tcga

Code for TCGA spefic analyses

test-notebooks

open tests