Showing : ProteomicsWorkflow • reset
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Combining two proteomics datasets with limpa
limpa ProteomicsWorkflow limma
8 weeks ago • updated 6 weeks ago Andrew Pattison • 0
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Spectra and PSMatch- trouble in reducePSMs, joinSpectraData, or countIdentifications?
ProteomicsWorkflow PSMatch Spectra RforProteomics
updated 17 months ago by 1.6k • written 17 months ago by • 0
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699
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analysis of overexpressed proteins in metaproteomes
Proteomics ProteoMM ProteomicsWorkflow Proteome
written 2.3 years ago by ▴ 10
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Using Limma R package For Proteomics differential expression
limma ProteomicsWorkflow
updated 2.5 years ago by 53k • written 4.3 years ago by ▴ 340
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1.6k
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R for Mass Spectrometry: Precursor Scan Number lost when converting .wiff to .mzML?
Proteomics RforProteomics ProteomicsWorkflow Spectra MassSpectrometryData
updated 2.6 years ago by 1.6k • written 2.6 years ago by • 0
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5
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1.6k
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R for Mass Spectrometry: PSMatch package won't read .mzid file exported from ProteinPilot?
RforProteomics Proteomics ProteomicsWorkflow
updated 2.6 years ago by 1.6k • written 2.6 years ago by • 0
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Proteomics data with NA values
Proteomics ProteoMM ProteomicsWorkflow
updated 2.6 years ago by • 0 • written 2.8 years ago by • 0
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1
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1.3k
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Which software can work withThermo ProteomeDiscover software output?
ProteomicsWorkflow proteomics proteinProfiles
updated 3.0 years ago by 1.6k • written 5.3 years ago by ▴ 20
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Design and contrast matrices for analyzing the effect of two factors of interest on protein expression, controlling for factors and covariates not of…
limma Proteomics ProteomicsWorkflow
updated 3.6 years ago by 53k • written 3.6 years ago by • 0
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Questions about msqrob2: raw vs LFQ intensities, model design with blocking
msqrob2 ProteomicsWorkflow proteomics
updated 3.8 years ago by 53k • written 3.8 years ago by ▴ 10
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1
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1.3k
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How to pull-down gene/protein names from the database search, using R ?
proteinProfiles ProteomicsWorkflow ProteomicsAnnotationHubData Proteomics
updated 4.5 years ago by 53k • written 4.5 years ago by • 0
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5.5k
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Convert UniProt Entry Names into Gene Symbols
Proteomics ProteomicsWorkflow UniProt.ws
updated 5.1 years ago by 68k • written 5.1 years ago by ★ 1.6k
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News: Online training - Proteomics in R and Bioconductor
ProteomicsWorkflow proteomics Proteome
5.3 years ago info ▴ 10
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1.5k
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R package to change protein *.msf file to any readable file
Proteome ProteomicsWorkflow proteomics
updated 5.3 years ago by ★ 1.4k • written 5.3 years ago by ▴ 20
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Comment: Inclusion of non-coding portions of transcripts (UTR-regions and introns) within by Pat • 0
Ill be honest, I didnt trust any of these services for a long time. Im a political science major and the pressure around writing is intense…
Comment: Question on processing compound protein groups in limpa by brianpeterson1210 • 0
Thank you[,][1] Appreciated! [1]: http://paint3d.org
Comment: Subsetting DDS object for individual conditions over time by A ▴ 60
Hi @atpoint Thank you for the quick reply! and this makes sense! I will confirm with a corr to see how the SFs differ but also how DE dif…
Answer: Subsetting DDS object for individual conditions over time by ATpoint ★ 5.0k
It would surprise my quite a bit if the size factors would differ notably between subset or not. I would always try to keep the size factor…
Comment: GSEA error by Adithi • 0
Thank you so much. That makes perfect sense to me. I will work on this.
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Comment: Question about using LRT test for time course experiments with DESeq2
A: DESeq2 LRT test for multi-factor designs
Answer: RNA Seq using Lrt
Answer: DESeq2 LRT Reduced Formula
Answer: DESeq2: LRT or WALD guidance
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