User: mario.zanfardino

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Naples (Italy)
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I'm a Bioinformatician. For details go to:

https://www.linkedin.com/in/mario-zanfardino-0b94734b/

Posts by mario.zanfardino

<prev • 43 results • page 1 of 5 • next >
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TCGA isoform expression quantification file - how to reshape data
... I have this R data.frame: barcode miRNA_region sum_read_count TCGA-18-3406-01A-01T-0981-13 hsa-let-7a-1_MIMAT0000062 11867 TCGA-18-3407-01A-01T-0981-13 hsa-let-7a-1_MIMAT0000062 12821 TCGA-18-3408-01A-01T-0981-13 hsa-let-7a-1_MIMAT0000062 9703 ...
tcga data.frame reshape data written 7 days ago by mario.zanfardino150 • updated 7 days ago by Steve Lianoglou12k
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TCGA MAF (Mutations) data
... Hy everyone, my question is: if a TCGA sample there is not in the MAF file for specific gene mutations (ex. KRAS), this means that patient not have KRAS mutations or that the patient was not analyzed in the corresponding pipeline? Thank you! ...
snp tcga maf mutations gdc written 14 days ago by mario.zanfardino150 • updated 12 days ago by Sean Davis21k
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Comment: C: MultiAssayExperiment: Error in dimnames(x) <- dn : length of 'dimnames' [2] not
... Now run. After R session restarting. Thank you! ...
written 7 months ago by mario.zanfardino150
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Comment: C: MultiAssayExperiment: Error in dimnames(x) <- dn : length of 'dimnames' [2] not
... Hi Marcel,  the 1.7.21 version returns with the same error: Error in dimnames(x) <- dn : length of 'dimnames' [2] not equal to array extent ...
written 7 months ago by mario.zanfardino150
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Comment: C: MultiAssayExperiment: Error in dimnames(x) <- dn : length of 'dimnames' [2] not
... Good! thank you again Marcel! This version is already available? ...
written 8 months ago by mario.zanfardino150
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Comment: C: MultiAssayExperiment: Error in dimnames(x) <- dn : length of 'dimnames' [2] not
... #CODE TO GENERATE MY DATA library("curatedTCGAData") library("SummarizedExperiment") library("MultiAssayExperiment") ## Downolad MAE BRCA data BRCA_TCGA <- curatedTCGAData(diseaseCode = "BRCA", assays = c("miRNASeqGene", "RNASeqGene"), ...
written 8 months ago by mario.zanfardino150
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Comment: C: MultiAssayExperiment: Error in dimnames(x) <- dn : length of 'dimnames' [2] not
... #CODE TO GENERATE MY DATA library("curatedTCGAData") library("SummarizedExperiment") library("MultiAssayExperiment") ## Downolad MAE BRCA data BRCA_TCGA <- curatedTCGAData(diseaseCode = "BRCA", assays = c("miRNASeqGene", "RNASeqGene"), ...
written 8 months ago by mario.zanfardino150
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Comment: C: MultiAssayExperiment: Error in dimnames(x) <- dn : length of 'dimnames' [2] not
... With only subsetting no error is generated! but with 1:107 wideformat runs! (and also this  do not exist in some of my experiments) ! ...
written 8 months ago by mario.zanfardino150
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5 follow
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MultiAssayExperiment: Error in dimnames(x) <- dn : length of 'dimnames' [2] not equal to array extent
... I have the following MAE:​ > data A MultiAssayExperiment object of 4 listed experiments with user-defined names and respective classes. Containing an ExperimentList class object of length 4: [1] BRCA_miRNASeqGene-20160128: SummarizedExperiment with 500 rows and 65 columns [2] BRCA_RNASeqGene-20 ...
tcga multiassayexperiment wide format written 8 months ago by mario.zanfardino150 • updated 8 months ago by Marcel Ramos ♦♦ 360
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Comment: C: MultiAssayExperiment:combine two multiassayexperiment object
... Thank you very much Marcel! ...
written 8 months ago by mario.zanfardino150

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