Bioconductor Qualitycontrol

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GWASTools qualitycontrol HumanOmni5-4BeadChip GenomeStudio illumina

updated 8.0 years ago by Stephanie M. Gogarten ▴ 870 • written 8.0 years ago by Lna • 0

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NUSE qualitycontrol microarray

updated 8.3 years ago by Diego Diez ▴ 760 • written 8.3 years ago by jacorvar ▴ 40

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qualitycontrol

updated 7.1 years ago by Mike Smith ★ 6.5k • written 7.1 years ago by XIA.PAN ▴ 20

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rna-seq GC-Content qualitycontrol

updated 8.5 years ago by Matthew McCormack ▴ 180 • written 8.5 years ago by NS ▴ 60

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qc qualitycontrol arrayqualitymetrics mouse gene st 2.0 affymetrix

updated 6.7 years ago by James W. MacDonald 65k • written 6.7 years ago by n.lu • 0

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limma affy probe qualitycontrol design and contrast matrix

updated 9.3 years ago by Gordon Smyth 50k • written 9.3 years ago by alakatos ▴ 130

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1.2k

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Microarray OneChannel TwoChannel DifferentialExpression Preprocessing QualityControl affy

17.0 years ago Amin Moghaddasi ▴ 130

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1.0k

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QualityControl Alignment QuasR

updated 3.2 years ago by Michael Stadler ▴ 350 • written 3.2 years ago by h.kozlowski • 0

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915

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QualityControl methylationArrayAnalysis

2.2 years ago zusman • 0

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1.1k

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limma one colour agilent microarrays qualitycontrol arrayqualitymetrics

7.5 years ago Bouzid.a ▴ 20

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999

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shinymethyl minfi epic microarray methylationepic qualitycontrol

7.2 years ago chelsey.ju • 0

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607

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folder quality QualityControl AffyExpress

3.4 years ago bastien_chassagnol • 0

12 results • Page 1 of 1

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Answer: PCA plot suggestions by Michael Love 41k

For help with interpretation and design of analysis, I recommend working with a local statistician. Due to time restrictions, I can only…

Comment: DESeq2 Error in `.rowNamesDF<-`(x, value = value): Invalid 'row.names' length by ussarizona ▴ 10

Hi Michael, Yes, I could figure it out what does the error mean. In my matrix I had the first colum GeneID while in my condition I only h…

Answer: Deseq2. decontXcounts not integers. Useful alternative? by Michael Love 41k

Another option would be to put the per sample estimated contamination in the design. This is for example how RUV etc help remove spurious D…

Answer: ATACseq merge peaks by ATpoint ★ 4.0k

That depends on your analysis. Typically, for differential analysis (and convenience) you would produce a single set of peaks (e.g. by merg…

Comment: Deseq2. decontXcounts not integers. Useful alternative? by camp ▴ 10

Yes, @atpoint is correct. decontX decontaminated counts are not integers due to the way the variation inference algorithm works, but you ca…

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Comment: DESeq2 Error in `.rowNamesDF<-`(x, value = value): Invalid 'row.names' length