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/curatedMetagenomicDataAnalyses
Analyses in R and Python Using curatedMetagenomicData
waldronlab/ProjectAsPackage
Demonstration of the use of an R package to organize a data analysis project
waldronlab/enrichOmics
Functional enrichment analysis of high-throughput omics data
waldronlab/CNVWorkshop
Workshop for CNV analysis with Bioconductor
waldronlab/PublicDataResources
Public data resources and Bioconductor: The goal of this workshop is to introduce Bioconductor packages for finding, accessing, and using large-scale public data resources including the Gene Expression Omnibus GEO, Sequence Read Archive SRA, the Genomic Data Commons GDC, and Bioconductor-hosted curated data resources for metagenomics, pharmacogenomics PharmacoDB, and The Cancer Genome Atlas.
waldronlab/subtypeHeterogeneity
Tumor subclonality of expression-based cancer subtypes
waldronlab/AnVILWorkshop
AnVIL/Terra workshop for Bioconductor conference
waldronlab/curatedMetagenomicDataTerminal
A Command-Line Interface for curatedMetagenomicData
waldronlab/MultiAssayExperiment-CCLE
waldronlab/curatedMetagenomicDataPipeline
The Preprocessing Pipeline for curatedMetagenomicData
waldronlab/curatedTCGAWorkshop
Workshop material for the BiocNYC R/Bioconductor
waldronlab/bioc_docker
waldronlab/cacheur
waldronlab/ImageSC
waldronlab/MicrobiomeOntology
waldronlab/MultiAssayExperiment-NCI60
MultiAssayExperiment creation for NCI60 data
waldronlab/MultiAssayShiny
A shiny tool for exploring MultiAssayExperiment methods
waldronlab/BiocChallenges
Challenges for the Biocoductor community.
waldronlab/curatedMetagenomicDataShinyApp
ShinyApp for curatedMetagenomicDataCuraiton
waldronlab/EPIC-BiocIntro
Introduction to Bioconductor
waldronlab/HDF5S3
Load HDF5 files from S3 and into Bioconductor objects
waldronlab/IdentiFix
A package for indentifier corrections
waldronlab/omicidxClientR
waldronlab/pensim
Tuning and nested cross-validation for L1, L2, and Elastic Net penalized regression
waldronlab/primers
Primers based on the last CC-BY-4.0 licensed version of https://github.com/rstudio-education/primers (commit a3b5e96)
waldronlab/schematics
waldronlab/SCMMreview
waldronlab/sratool
waldronlab/TypicalMicrobiomeSignatures
Typical microbiome signatures identification and applications in epidemiological analysis
waldronlab/TypicalMicrobiomeSignaturesExports