Bioconductor Genes

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679

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DESeq2 genes Differential expressed

19 months ago Syed Zaheer ▴ 10

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1.2k

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GeneSetEnrichment genes genetogo

updated 2.5 years ago by Basti ▴ 780 • written 2.5 years ago by Noy • 0

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778

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R microRNA genes binding Site

5.5 years ago pengu447 • 0

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1.6k

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edger differential expression genes fold change

updated 5.5 years ago by Aaron Lun ★ 28k • written 5.5 years ago by ilovesuperheroes1993 • 0

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878

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deseq2 genes expression

updated 5.7 years ago by Michael Love 43k • written 5.7 years ago by UserAnonyme • 0

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1.3k

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topGO significant enrichment genes IDs

5.9 years ago David ROUX ▴ 20

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1.1k

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deseq2 variance genes

updated 7.1 years ago by Michael Love 43k • written 7.1 years ago by hs.lansdell ▴ 20

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1.2k

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cnv genes genomic ranges splitByOverlap

updated 7.7 years ago by Martin Morgan 25k • written 7.7 years ago by julrodr80 ▴ 30

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797

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deseq2 genes

updated 8.4 years ago by Michael Love 43k • written 8.4 years ago by silviajserrano • 0

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2.9k

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deseq2 wald lrt genes significance

updated 8.5 years ago by Michael Love 43k • written 8.5 years ago by aziza ▴ 20

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2.7k

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heatmap rownames genes

9.3 years ago johnlee.johnson • 0

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1.5k

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datasets genes gene expression

updated 9.3 years ago by Steve Lianoglou ★ 13k • written 9.3 years ago by vavecilla • 0

12 results • Page 1 of 1

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Comment: Cross-validation with multiple control subgroups in limma by Ali Barry ▴ 40

Thanks so much for taking the time here, the insights are much appreciated. I suspected I'd have to ad hoc compare results if I did repeat …

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…

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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