Ma'ayan Lab
Developing Computational Methods to Study the Complexity of Regulatory Networks in Mammalian Cells
New York City, NY
Pinned Repositories
appyter
jinja2-enabled jupyter notebooks
appyter-catalog
A catalog of appyter notebooks
archs4
ARCHS4 RNA-seq processing scripts and web server pages.
biojupies
Automated generation of tailored bioinformatics Jupyter Notebooks via a user interface.
biojupies-plugins
User-submitted RNA-seq data analysis tools for BioJupies.
blitzgsea
Fast Gene Set Enrichment Analysis (GSEA) implementation of the prerank algorithm. Use Loess interpolation of bimodal ES distribution for accurate p-value estimation.
clustergrammer
An interactive heatmap visualization built using D3.js
clustergrammer-widget
The Clustergrammer interactive Jupyter notebook widget
HarmonizomePythonScripts
Zika-RNAseq-Pipeline
An open RNA-Seq data analysis pipeline tutorial with an example of reprocessing data from a recent Zika virus study
Ma'ayan Lab's Repositories
MaayanLab/geo2enrichr
A browser extension and web application for extracting gene sets from GEO and piping them to Enrichr.
MaayanLab/clustergrammer-web
Create a clustergram visualization from a user defined network in tsv format.
MaayanLab/react-scatter-board
A reusable React library for interactive THREE.js 2d/3d scatter plots
MaayanLab/geode
A Python implementation of the R package GeoDE
MaayanLab/L1000FWD
Large-scale visualization of drug-induced transcriptomic signatures
MaayanLab/creeds
The web application for the crowdsourced gene expression signatures: http://amp.pharm.mssm.edu/creeds/
MaayanLab/EnrichrBot
MaayanLab/Graph-DR
Benchmarks of dimensionality reduction algorithms
MaayanLab/smartAPIs
Smart API specifications for various Ma'ayan Lab Tools
MaayanLab/x2k_web
The X2K Web project
MaayanLab/server-templates
Docker containers of preconfigured servers and web application stacks.
MaayanLab/signature-commons
A docker-compose for deploying the entire signature-commons stack
MaayanLab/archs4r
R package to load and query ARCHS4 data in R
MaayanLab/BioToolStory
MaayanLab/cfde_gene_pages
Common Fund Gene Landing Pages as a Dashboard
MaayanLab/countapi
An in-house replacement for countapi.xyz powered by postgrest
MaayanLab/intro-to-bioinfor-omics
Interactive website that hosts the materials for the Intro to Bioinfor-Omics course
MaayanLab/Reprotox-KG
MaayanLab/benchmarkcorrelation
Simple benchmark for correlation matrix
MaayanLab/correlation
Test different methods for correlation
MaayanLab/drs-client
A client for GA4GH's DRS
MaayanLab/ETL-appyter-utilities
Harmonizome and Drugmonizome appyter utilities
MaayanLab/GEO2Playbook
MaayanLab/lincs-reverse-search-dashboard
A standalone webapp version of the LINCS L1000 Reverse Search Appyter
MaayanLab/ReproToxPaper
Code for the ReproToxPaper
MaayanLab/signature-commons-schema
JSON-Schema validators for signature commons entities
MaayanLab/swagger-ui
Swagger UI is a collection of HTML, Javascript, and CSS assets that dynamically generate beautiful documentation from a Swagger-compliant API.
MaayanLab/web-dev-assignment-template
MaayanLab/Workshop.io
A minimalist Jekyll theme for running a workshop webpage powered by Jekyll and GitHub Pages
MaayanLab/xalign
Hassle-free RNA-seq alignment