Bioconductor QualityControl

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QualityControl methylationArrayAnalysis

2.9 years ago zusman • 0

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1.3k

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QualityControl Alignment QuasR

updated 3.9 years ago by Michael Stadler ▴ 350 • written 3.9 years ago by h.kozlowski • 0

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732

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folder quality QualityControl AffyExpress

4.0 years ago bastien_chassagnol • 0

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1.7k

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qc qualitycontrol arrayqualitymetrics mouse gene st 2.0 affymetrix

updated 7.3 years ago by James W. MacDonald 67k • written 7.3 years ago by n.lu • 0

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qualitycontrol

updated 7.8 years ago by Mike Smith ★ 6.6k • written 7.8 years ago by XIA.PAN ▴ 20

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1.2k

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shinymethyl minfi epic microarray methylationepic qualitycontrol

7.8 years ago chelsey.ju • 0

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limma one colour agilent microarrays qualitycontrol arrayqualitymetrics

8.2 years ago Bouzid.a ▴ 20

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GWASTools qualitycontrol HumanOmni5-4BeadChip GenomeStudio illumina

updated 8.6 years ago by Stephanie M. Gogarten ▴ 870 • written 8.6 years ago by Lna • 0

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1.7k

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NUSE qualitycontrol microarray

updated 9.0 years ago by Diego Diez ▴ 760 • written 9.0 years ago by jacorvar ▴ 40

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2.7k

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rna-seq GC-Content qualitycontrol

updated 9.1 years ago by Matthew McCormack ▴ 180 • written 9.1 years ago by NS ▴ 60

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1.9k

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limma affy probe qualitycontrol design and contrast matrix

updated 10.0 years ago by Gordon Smyth 52k • written 10.0 years ago by alakatos ▴ 130

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Microarray OneChannel TwoChannel DifferentialExpression Preprocessing QualityControl affy

17.6 years ago Amin Moghaddasi ▴ 130

12 results • Page 1 of 1

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Answer: Cross-validation with multiple control subgroups in limma by Gordon Smyth 52k

limma doesn't do cross-validation or resampling. Like most classical linear modeling procedures in statistics, limma uses a statistical mod…

Comment: Issues with seqlevelsStyle when making custom txdb objects for genomes/annotatio by Robert Castelo ★ 3.4k

Hi Hervé, thank you very much for your input into how to properly build and manage TxDb objects. gDNAx has two main inputs, one or more BAM…

Comment: Biostrings: Error writing long reads (>200 kbps) with writeQualityScaledXStringS by Aidan ▴ 60

Quick update: this is fixed in a branch awaiting PR to Biostrings (https://github.com/Bioconductor/Biostrings/pull/122). Should be in `deve…

Answer: Can DESeq2's design compensate for sequencing experimental design shortcomings? by Michael Love 43k

For statistical analysis plans, I recommend working with a local statistician or someone familiar with linear models in R. I have to reserv…

Comment: how should I apply "cpg.annotate" to TCGA methylation data in hg38 for HM450K? by xiaofeiwang198266 • 0

Thanks for your reply!

Votes

C: edgeR and lack of counts ID on CPM matrix

A: DESeq2 Following RSEM

A: importing RSEM data into DESeq2

A: Expected counts from RSEM in DESeq2

A: Using RSEM reads for DESeq2

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