There are no reviews yet. Be the first to send feedback to the community and the maintainers!
UpSetR
An R implementation of the UpSet set visualization technique published by Lex, Gehlenborg, et al..viv
Library for multiscale visualization of high-resolution multiplexed bioimaging data on the web. Directly renders Zarr and OME-TIFF.hic-data-analysis-bootcamp
Workshop on measuring, analyzing, and visualizing the 3D genome with Hi-C data.scde
R package for analyzing single-cell RNA-seq dataCHIEF
Clinical Histopathology Imaging Evaluation Foundation Modelvizarr
A minimal Zarr image viewer based on Viv.chromoscope
Interactive multiscale visualization for structural variation in human genomes3d-genome-processing-tutorial
A 3D genome data processing tutorial for ISMB/ECCB 2017MOMA
MOMAspp
SPP - R package for analysis of ChIP-seq and other functional sequencing dataupset-altair-notebook
Jupyter Notebooks and other code for Altair-based Interactive UpSet Plotshalyos
Redesigning the Patient Portal Experience with SMART on FHIR.UpSetR-shiny
A Shiny wrapper for the UpSetR R package (https://github.com/hms-dbmi/UpSetR).dseqr
single-cell and bulk RNA-seq analyses from counts → pathways → drug candidates.scw
HSCI/Catalyst Single-cell RNA-Seq WorkshopEHRtemporalVariability
R package for delineating temporal dataset shifts in Eletronic Health Recordsbrainmapr
R package to infer spatial location of neuronal subpopulations within the developing mouse brain by integrating single-cell RNA-seq data with in situ RNA patterns from the Allen Developing Mouse Brain Atlascharm
cistrome-explorer
Interactive visual analytic tool for exploring epigenomics data w/ associated metadata, powered by HiGlass and Goslinggenocat
Genomic Visualization Cataloghail-on-AWS-spot-instances
An option to spin cost effective EMR clusters in AWS with Hail and JupyterNotebook installedGenoPheno-CatalogShiny
Shiny app for geno-pheno catalogOncoThreads
OncoThreads longitudinal cancer genomics visualization project.breastCaPathologyTranscriptomics
Integrative Transcriptome-Histopathology Analysis for Breast Cancer ClassificationDrug_Explorer
Interactive & explainable GNN for drug repurposingaltair_examples
Juptyer Notebooks with Altair ExamplesUpSetR-paper
Data and scripts for UpSetR paper.gehlenborglab-website
Code for Gehlenborg Lab website.crestree
Neural Crest Fate Decisionsaws-python-utilities
Access-to-Data-using-PIC-SURE-API
hapi-fhir-docker
A Docker build of the HAPI-FHIR stackEHRtemporalVariability-shiny
Shiny app for EHRtemporalVariability R packagepic-sure
PIC-SURE APIpic-sure-bdc-infrastructure
avillachlab-jenkins
pic-sure-hpds
spacemut
Spatial analysis of genome mutation patternspic-sure-all-in-one
Hail-on-Google-Cloud
pic-sure-hpds-genotype-load-example
picker
R scatterplot deck.gl widget inspired by vitesscemHealthieR
R package to assess and evaluate longitudinal mHealth sensor data.hypatio-app
pic-sure-r-adapter-hpds
Adapter library for PIC-SURE HPDS Resources (in R language)map-explorer
Use MAP to explore EHR data for individual patients.decart-2019-data-visualization
Materials for the DeCART 2019 Summer School Data Visualization Coursedjango-dbmi-client
A Django application to integrate with DBMI servicespic-sure-auth-microapp
i2b2-Java-API
Java classes to abstract away i2b2 XML - DEPRECATED, See https://github.com/hms-dbmi/IRCT\tev-server
Repository for tumor evolution visualization back end.RaMeDiES
Statistical models for finding de novo recurrence and compound heterozygosity across rare disease patient cohortsmatrix_storage_benchmark
hail-workshop-2019
Hail workshop material for: i2b2tranSMART Foundation Harvard Symposium 2019pic-sure-metadata-curation
Parse and generate variable-level data to be exposed through the search interface.pic-sure-bdc-frontend
IRCT
Merged IRCT Repositorymusic-ecrf-harmonization
hail-on-EMR
EMR cluster creation and Hail 0.2 installationpklab
Kharchenko Lab Resourcesdocker-images
This repository stores Dockerfiles and samples to build Docker images for Avillach Lab hms-dbmi projects.dbmi-fileservice
pic-sure-core-frontend
fhirquestionnaire
i2b2-to-PCORNET-CDM
i2b2 to PCORNET CDM Scriptshpds-etl-sbg-cwl
service-workbench-infrastructure-tools
AWS lambda functions to extend SWB functionalityrcc_pathology
Development of a Histopathology Informatics Pipeline for Classification and Prediction of Clinical Outcome in Subtypes of Renal Cell Carcinoma. Clinical Cancer Research. 2021 Mar 15. doi: 10.1158/1078-0432.CCR-20-4119. Online ahead of print.i2b2v2-webclient
dcppc
Data Commons Pilot Phase Projectvitessce-grid
Simplified wrapper for react-grid-layoutpystarter
base project to be used as a starter for all your other python projectsgehlenborg-lab-best-practices
Guidelines for creating medium-scale visualization softwareIRCT-EXT
- DEPRECATED, See https://github.com/hms-dbmi/IRCTsci-aws-infrastructure
Rcheesecake
Query and retrieve phenotypics and genotypics data using PIC-SURE APIPIC-SURE-resources
PIC-SURE resource configuration filesRcupcake
dbmisvc-stack
pic-sure-python-adapter-hpds
A Python client library for PIC-SURE-HPDS resourcesstack
SciAuth-app-docker
pic-sure-r-client
Client library in R for connecting to PIC-SURE resourcespynxgu
GIC-ontology
ppm-data
pic-sure-bdc-release-control
SciReg-docker
upset-faculty
Interactive UpSet plot for DBMI faculty areas of interest.pic-sure-python-client
A client library for interacting with the PIC-SURE APIbmi713-visualization-lecture-2018
avillachlab-pic-sure-splunk-template
Dashboard templates for Splunk 8.0single-cell-review-2020
Notesbooks for the 2020 single-cell review papersecret-getter
retrieves secrets given a vault_token, and replaces values in files and/or environment variablessamplestore
This app uses Django Rest Framework to expose an API for managing a collection of data about samples from subjects that participate in a research project.SciAuthZ-app-docker
A small authorization serviceCOPDGene-WGS
sratoolkit
PIC-SURE-Frontend
A frontend for the PIC-SURE APIPICTURE
Pathology Imaging Characterization with Uncertainty-aware Rapid Evaluation (PICTURE)Love Open Source and this site? Check out how you can help us