Bioconductor Qualitycontrol

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GWASTools qualitycontrol HumanOmni5-4BeadChip GenomeStudio illumina

updated 7.9 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 8.4 years ago by Matthew McCormack ▴ 180 • written 8.4 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

16.9 years ago Amin Moghaddasi ▴ 130

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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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895

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QualityControl methylationArrayAnalysis

2.2 years ago zusman • 0

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limma one colour agilent microarrays qualitycontrol arrayqualitymetrics

7.5 years ago Bouzid.a ▴ 20

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shinymethyl minfi epic microarray methylationepic qualitycontrol

7.2 years ago chelsey.ju • 0

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folder quality QualityControl AffyExpress

3.3 years ago bastien_chassagnol • 0

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Comment: DESeq filtering specific to contrasts by Michael Love 41k

It will likely not filter it out, but really the per-dataset details would affect the results.

Comment: DESeq filtering specific to contrasts by Carlin95 • 0

Thanks for clarifying. Could I ask maybe one more thing for my sanity? Let's say you had a multi-factor experiment with contrasts including…

Comment: FilterByExpr low counts with small sample size by Jonathan ▴ 10

Thank you for your answer; However, I have some follow-up questions. Following up in In your [1-2-3 article][1], you say that > "... the…

Comment: DESeq2 a lot of genes showing up as differentially expressed that only have 1 sa by Seyram M. • 0

Thank you very much for your reply! I will do so. Kind regards, Seyram

Comment: Odd behavior of Rsubread::featureCounts when setting `nonOverlap = 0` by isaac.vock • 0

Thank you for your response. I can confirm that setting `-t exon` and/or removing `-s 1` and adding `-O` has no impact on the number of suc…

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Installing/switching between versions of R/Rstudio/Bioconductor on personal machine (Linux | Ubuntu)

A: Docker container with bioconductor and devtools

Answer: OrgDb for maize

Comment: significant difference of p-values with dream() after updating VariancePartition

How to tell and visualize up/down regulation of pathways from clusterprofiler gsea output

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