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Waldron Lab at the CUNY SPH (waldronlab)

Waldron Lab at the CUNY SPH

waldronlab

Geek Repo

Software and educational materials from the Waldron lab for computational biostatistics at the CUNY SPH in New York City

Location:New York, NY, USA

Home Page:https://waldronlab.io/

Twitter:@LeviWaldron1

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Waldron Lab at the CUNY SPH's repositories

MultiAssayExperiment

Bioconductor package for management of multi-assay data

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HGNChelper

Identify and correct invalid gene symbols

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lefser

R implementation of the LEfSe method

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cBioPortalData

Integrate the cancer genomics portal, cBioPortal, using MultiAssayExperiment

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curatedMetagenomicDataCuration

Sample Metadata Curation for curatedMetagenomicData

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AppStatBio

Applied Statistics for High-Throughput Biology

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SingleCellMultiModal

Single Cell multimodal data scripts for downloading datasets

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GSEABenchmarkeR

Reproducible GSEA Benchmarking

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curatedOvarianData

The curatedOvarianData package provides data for gene expression analysis in patients with ovarian cancer

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CNVRanger

Functionality for CNV analysis

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BugSigDB

A microbial signatures database

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presentations

A repository for public presentations

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bugphyzz

Harmonized annotation of microbial physiology

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bugsigdbr

R-side access to published microbial signatures from BugSigDB

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bugSigSimple

Simple exploratory analysis of curated microbe signatures

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OmicsMLRepoData

Translate Bioconductor resources into AI/ML-ready format + Manual curation/harmonization of the metadata for improved usability

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bugphyzzAnalyses

Analyses with data and signatures imported from the bugphyzz package.

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bugphyzzExports

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BugSigDBExports

BugSigDB data files

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BugSigDBStats

BugSigDB Stats and Analysis

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MultiAssayExperiment_Bioc2016

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taxPPro

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utils

Misc. scripts for assorted tasks

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MicrobiomeBenchmarkData

Data for benchmarking in microbiome research.

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TENxIO

Bioconductor interface to 10X files

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terraTCGAdata

TCGA data access on Terra

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ASAP_MAC

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MicrobiomeBenchmarkDataAnalyses

Analyses using the datasets provided by the MicrobiomeBenchmarkData package.

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taxPProValidation

Code for validation analyses for prediction of annotations in bugphyzz

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VisiumIO

Import spaceranger output and 10X spatial data

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