Waldron Lab at the CUNY SPH
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119 repositories
BugSigDBExports
Publicczieoss6-biocgpu
Public- Sample Metadata Curation for curatedMetagenomicData
curator-desk
PublicAppStatBio
PublicBugSigDBStats
Publicbugphyzz
PublicHarmonized annotation of microbial physiologyimageFeatureTCGA
PublicimageTCGAutils
Publicbioanalyzer-backend
PublicStreamline BugSigDB curation with AI-powered scientific paper analysis. Automatically extracts essential microbiome study metadata from research papers, reducin…ai-agent-skills
Public archiveA collection of AI agent skills relevant to our work, including analysis and development of R/Bioconductor packages + statistical and bioinformatic analysis.curatedMetagenomicData
PublicCurated Metagenomic Data of the Human Microbiomeutils
PublicTCGAutils
PublicToolbox package for organizing and working with TCGA dataBugSigDB
PubliccuratedTCGAData
PublicCurated Data From The Cancer Genome Atlas (TCGA) as MultiAssayExperiment ObjectsBugSigDBWorkshops
Publicpresentations
PublicbugSigSimple
PublicSimple exploratory analysis of curated microbe signaturesSingleCellMultiModal
PublicSingle Cell multimodal data scripts for downloading datasetsVisiumIO
PublicImport spaceranger output and 10X spatial dataconfig
Public.github
PubliccuratedOvarianData
PublicThe curatedOvarianData package provides data for gene expression analysis in patients with ovarian cancerbugsigdbr
PublicR-side access to published microbial signatures from BugSigDBcuratedCRCData
PublicThe curatedCRCData package provides ExpressionSet data with curated metadata and microarray gene expression data from colorectal cancer tumors.GSEABenchmarkeR
PublicReproducible GSEA BenchmarkingcBioPortalData
PublicIntegrate the cancer genomics portal, cBioPortal, using MultiAssayExperimentlefser
PublicR implementation of the LEfSe methoddoppelgangR
PublicIdentify possibly duplicate samples in a list of ExpressionSets
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