User: aluesley1

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aluesley120
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Posts by aluesley1

<prev • 4 results • page 1 of 1 • next >
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Matched paired DEA analysis of BRCA samples using TCGAbiolinks, works for paired = FALSE but not paired = TRUE
... I am attempting to do a DEA analysis of matched paired BRCA normal tumour samples using TCGAbiolinks. When I do an analysis of my samples using this formula dataDEGsMatched <- TCGAanalyze_DEA(mat1 = MatchedTPdataFilt, mat2 = MatchedNTdataFilt, ...
tcgabiolinks R rna-seq written 1 day ago by aluesley120
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Comment: C: Matched Paired Tumour-Normal DEA of BRCA using data downloaded using TCGAbiolink
... Ah thank you so much, such a silly error! When I used GDCDataCommons to identify files for matched paired samples for gene expression it came back with 112 but using the correct code with TCGAbiolinks find 113 which is a bit confusing. ...
written 2 days ago by aluesley120
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Matched Paired Tumour-Normal DEA of BRCA using data downloaded using TCGAbiolinks
... I am trying to use BRCA data downloaded using TCGAbiolinks to do a differential expression analysis. I want to do an analysis of the matched-paired tumour-normal samples but can't work out how to identify these cases from the samples I have. This is the code I have so far and my attempt to subset ...
tcgabiolinks R tcga written 3 days ago by aluesley120 • updated 2 days ago by Kevin Blighe21k
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Subsetting a RangedSummarizedExperiment in R
... Hi, sorry if this is a bit basic but I'm very new to R. I am working in Rstudio and I have gene expression data downloaded using TCGAbiolinks, I have downloaded it and prepared it into a RangedSummarizedObject so it includes the clinical data. I want to subset the data based on this clinical data ...
tcgabiolinks R rangedsummarizedexperiment written 10 days ago by aluesley120 • updated 10 days ago by Friederike1.8k

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