Waldron Lab at the CUNY SPH
Software and educational materials from the Waldron lab for computational biostatistics at the CUNY SPH in New York City
New York, NY, USA
Pinned Repositories
BugSigDB
A microbial signatures database
cBioPortalData
Integrate the cancer genomics portal, cBioPortal, using MultiAssayExperiment
curatedMetagenomicData
Curated Metagenomic Data of the Human Microbiome
curatedTCGAData
Curated Data From The Cancer Genome Atlas (TCGA) as MultiAssayExperiment Objects
data-science-seminar
Topics In Data Science and Bioinformatics
HGNChelper
Identify and correct invalid gene symbols
lefser
R implementation of the LEfSe method
MultiAssayExperiment
Bioconductor package for management of multi-assay data
presentations
A repository for public presentations
Statistical-Rethinking
An interactive online reading of McElreath's Statistical Rethinking
Waldron Lab at the CUNY SPH's Repositories
waldronlab/MultiAssayExperiment
Bioconductor package for management of multi-assay data
waldronlab/HGNChelper
Identify and correct invalid gene symbols
waldronlab/lefser
R implementation of the LEfSe method
waldronlab/curatedTCGAData
Curated Data From The Cancer Genome Atlas (TCGA) as MultiAssayExperiment Objects
waldronlab/cBioPortalData
Integrate the cancer genomics portal, cBioPortal, using MultiAssayExperiment
waldronlab/TCGAutils
Toolbox package for organizing and working with TCGA data
waldronlab/SingleCellMultiModal
Single Cell multimodal data scripts for downloading datasets
waldronlab/GSEABenchmarkeR
Reproducible GSEA Benchmarking
waldronlab/curatedOvarianData
The curatedOvarianData package provides data for gene expression analysis in patients with ovarian cancer
waldronlab/bioconductor
Docker container built on bioconductor/bioconductor_docker
waldronlab/BugSigDB
A microbial signatures database
waldronlab/CNVRanger
Functionality for CNV analysis
waldronlab/bugphyzz
Harmonized annotation of microbial physiology
waldronlab/bugsigdbr
R-side access to published microbial signatures from BugSigDB
waldronlab/bugSigSimple
Simple exploratory analysis of curated microbe signatures
waldronlab/OmicsMLRepoData
Translate Bioconductor resources into AI/ML-ready format + Manual curation/harmonization of the metadata for improved usability
waldronlab/bedbaser
An R client for bedbase.org
waldronlab/BugSigDBExports
BugSigDB data files
waldronlab/taxPPro
waldronlab/MicrobiomeBenchmarkData
Data for benchmarking in microbiome research.
waldronlab/TENxIO
Bioconductor interface to 10X files
waldronlab/terraTCGAdata
TCGA data access on Terra
waldronlab/BugSigDBEnrich
A ShinyApp to perform enrichemnt analysis with BugSigDB signatures.
waldronlab/cMDClick
waldronlab/cMDMeta
Dashboard for cMD
waldronlab/GSEABase
Gene set enrichment data structures and methods
waldronlab/HGNCREST
Query the HGNC REST API with R
waldronlab/MicrobiomeBenchmarkDataAnalyses
Analyses using the datasets provided by the MicrobiomeBenchmarkData package.
waldronlab/VisiumIO
Import spaceranger output and 10X spatial data
waldronlab/XeniumIO
software for importing 10X Xenium data