Bioconductor Insilicomerging

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affy insilicomerging

5.7 years ago pratikshasharma47 • 0

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inSilicoMerging microarray affymetrix microarrays

updated 6.0 years ago by James W. MacDonald 67k • written 6.0 years ago by Adam_M • 0

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insilicomerging error insilicodb expressionset

7.9 years ago andreas.pittroff • 0

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MDSplot geneexpression insilicomerging

updated 8.8 years ago by James W. MacDonald 67k • written 8.8 years ago by Shamim Sarhadi ▴ 20

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inSilicoMerging doubleannotation affymetrix microarrays limma inSilicoDB

9.3 years ago svlachavas ▴ 840

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combine expresiondataset insilicomerging

9.4 years ago alakatos ▴ 130

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insilicomerging batcheffect limma differential gene expression bioconductor

updated 9.5 years ago by Aaron Lun ★ 28k • written 9.5 years ago by svlachavas ▴ 840

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insilicomerging

9.5 years ago carol white ▴ 680

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frma bioconductor batcheffect Primeview insilicomerging

updated 9.7 years ago by Matthew McCall ▴ 830 • written 9.7 years ago by svlachavas ▴ 840

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inSilicoMerging

10.1 years ago Li Liu ▴ 100

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inSilicoMerging inSilicoMerging

updated 10.7 years ago by Quentin De Clerck ▴ 10 • written 10.7 years ago by François Lefebvre ▴ 50

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inSilicoMerging inSilicoMerging

updated 11.4 years ago by Dan Tenenbaum ★ 8.2k • written 11.4 years ago by Li Liu ▴ 100

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Colon hgu133a2 hgu133plus2 limma inSilicoMerging Colon hgu133a2 hgu133plus2 limma

11.5 years ago Ed Siefker ▴ 230

13 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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