Moderator: Levi Waldron

gravatar for Levi Waldron
Levi Waldron950
Reputation:
950
Status:
Trusted
Location:
CUNY Graduate School of Public Health and Health Policy, New York, NY
Website:
https://www.waldronlab...
Twitter:
leviwaldron1
Scholar ID:
Google Scholar Page
Last seen:
5 months, 2 weeks ago
Joined:
10 years, 6 months ago
Email:
l****************@gmail.com

I'm an associate professor of biostatistics at the CUNY Graduate School of Public Health and Health Policy in New York City, and have a special interest in streamlining the analysis of publicly available cancer genomics data in Bioconductor.  My lab is responsible for curatedOvarianData, ffpe, ffpeExampleData, curatedCRCData, curatedBladderData, curatedMetagenomicData, HMP16SData, curatedTCGAData, TCGAUtils, EnrichmentBrowser, MultiAssayExperiment, RaggedExperiment, GSEABenchmarkR, CNVRanger, and simulatorZ.  I also maintain a couple CRAN packages: HGNChelper and pensim. 

Posts by Levi Waldron

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News: BioC2019 registration nearly full
... **Public Service Announcement** - Bioc2019 NYC registration has been very strong and we will likely have to close registration soon. If you have made travel plans or otherwise have your heart set on it but haven't registered, I highly recommend doing it in the next couple days. Early registration e ...
news conference bioc2019 written 5 months ago by Levi Waldron950
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Comment: C: BioC2019 talks and workshops announced
... Four sessions of contributed talks just posted: 1) single-cell, 2) statistical methods, 3) software infrastructure, 4) biological focus. In addition to the workshops. Early registration ends May 24! Draft schedule from http://bioc2019.bioconductor.org/schedule : Tuesday June 25: : Single-cell them ...
written 7 months ago by Levi Waldron950 • updated 7 months ago by Martin Morgan ♦♦ 24k
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News: BioC2019 talks and workshops announced
... BioC2019 (in New York City) talks and workshops have been announced, and will be greatly expanded compared to previous years. There are 21 user-oriented workshops in four tracks on June 25-26 ([schedule][1]): 1. **The Basics**: - Bioconductor for Everyone - Fluent genomic workflows wit ...
news bioc2019 written 7 months ago by Levi Waldron950
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Answer: A: Breast cancer subtypes in TCGAutils
... Apologies that subtype provenance isn't yet documented in the object metadata, but subtypes in curatedTCGAData were all extracted from supplementary materials of the primary TCGA publication for that cancer type. ...
written 7 months ago by Levi Waldron950
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Comment: C: Perform correlation analysis between miRNA and mRNA gene expression data on the
... 1) I've fixed the link to the Firehose FAQ above. Your interpretation of the miRNASeqGene values seems correct to me, but I don't want to represent myself as an expert on the Firehose pipeline itself or take any chance of giving you a wrong answer there... 2) You may find `wideFormat()`, `MatchedAs ...
written 7 months ago by Levi Waldron950
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Answer: A: Perform correlation analysis between miRNA and mRNA gene expression data on the
... A) the drill-down process in curatedTCGAData goes something like this. The data are the last snapshot provided by TCGA Firehose, ie GDC "legacy" data ( https://confluence.broadinstitute.org/display/GDAC/FAQ ). > library(curatedTCGAData) > curatedTCGAData(diseaseCode = "*", assays = "* ...
written 7 months ago by Levi Waldron950
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Comment: C: BioC2019 talk/workshop/scholarship submission deadline MARCH 15
... Thanks for your interest Haibo! There is a link to the scholarship application form at http://bioc2019.bioconductor.org/call-for-abstracts; please go ahead and fill that out (it's not any more work than what you've already written). You seem well-qualified. ...
written 8 months ago by Levi Waldron950
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News: BioC2019 talk/workshop/scholarship submission deadline MARCH 15
... The deadline to submit a syllabus proposing a workshop, an abstract for a talk or poster, or a travel scholarship application to BioC2019 in New York City is fast approaching on **March 15**. Will be again producing a workshop booklet from accepted workshops (see the [BioC2018 workshop booklet][1] f ...
news bioc2019 written 8 months ago by Levi Waldron950 • updated 8 months ago by Julie Zhu4.1k
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News: Registration for BioC2019 in NYC now open
... Registration for BioC2019 in NYC is now open, and several invited speakers announced (Jeff Leek, Lieven Clement, Simina Boca, Anshul Kundaje, Lihua Julie Zhu). Travel scholarships available. http://bioc2019.bioconductor.org/registration   ...
news conference conference registration written 11 months ago by Levi Waldron950
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News: BioC2019 June 24-27 in New York City
... Mark your calendars for the BioC2019 Bioconductor annual conference in Manhattan, New York City (Twitter: #BioC2019). Developer Day is June 24 at NYU Langone Medical Center, the User Conference is June 25-26 at The Rockefeller University, and there will be a special one-time-only "Robert Gentleman S ...
news conference written 12 months ago by Levi Waldron950

Latest awards to Levi Waldron

Popular Question 10 months ago, created a question with more than 1,000 views. For Error creating DESeqDataSet from "airway" SummarizedExperiment
Popular Question 13 months ago, created a question with more than 1,000 views. For Error creating DESeqDataSet from "airway" SummarizedExperiment
Appreciated 13 months ago, created a post with more than 5 votes. For BioC2019 June 24-27 in New York City
Teacher 17 months ago, created an answer with at least 3 up-votes. For A: Reproducibility of MultiDataSet Comparison
Teacher 17 months ago, created an answer with at least 3 up-votes. For A: Integrated genomic analysis - mRNA, proteomics, flow, miRNA-seq
Supporter 17 months ago, voted at least 25 times.
Scholar 17 months ago, created an answer that has been accepted. For A: Gene set enrichment analysis
Popular Question 17 months ago, created a question with more than 1,000 views. For multiple ColSideColors-type annotations on a heatmap
Scholar 19 months ago, created an answer that has been accepted. For A: Gene set enrichment analysis
Teacher 2.4 years ago, created an answer with at least 3 up-votes. For A: Reproducibility of MultiDataSet Comparison
Teacher 2.4 years ago, created an answer with at least 3 up-votes. For A: Integrated genomic analysis - mRNA, proteomics, flow, miRNA-seq
Popular Question 3.6 years ago, created a question with more than 1,000 views. For multiple ColSideColors-type annotations on a heatmap
Teacher 3.6 years ago, created an answer with at least 3 up-votes. For A: Integrated genomic analysis - mRNA, proteomics, flow, miRNA-seq
Scholar 5.0 years ago, created an answer that has been accepted. For A: Gene set enrichment analysis
Autobiographer 5.0 years ago, has more than 80 characters in the information field of the user's profile.

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