Bioconductor Model

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1.0k

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DESeq2 model

updated 4 months ago by Michael Love 43k • written 5 months ago by picasa1983 • 0

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904

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DESeq2 LRT Model

updated 2.8 years ago by Michael Love 43k • written 2.8 years ago by JaneDoe • 0

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1.2k

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model BatchEffect hidden Design DESeq2

3.1 years ago m.glymenaki • 0

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1.3k

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DESeq2 ErrorincheckFullRank(modelMatrix) model

updated 4.1 years ago by Michael Love 43k • written 4.1 years ago by Isabelle • 0

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1.1k

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diffbind blocking model

updated 4.1 years ago by Rory Stark ★ 5.2k • written 5.2 years ago by melnuesch ▴ 10

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1.2k

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deseq2 interaction model

updated 4.5 years ago by Michael Love 43k • written 4.5 years ago by aec ▴ 90

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2.3k

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limma dose-response linear model model formula

updated 7.0 years ago by James W. MacDonald 67k • written 7.0 years ago by biominer ▴ 10

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2.5k

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edgeR edger "glmqlftest()" timecourse model

updated 7.4 years ago by Ryan C. Thompson ★ 7.9k • written 7.4 years ago by heikki.sarin ▴ 10

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2.6k

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egdeR multiple time points model.matrix differential exon usage model

7.4 years ago heikki.sarin ▴ 10

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1.4k

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dexseq timecourse model.matrix model

7.4 years ago heikki.sarin ▴ 10

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1.6k

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dexseq rna-seq model.matrix model

updated 7.4 years ago by Michael Love 43k • written 7.4 years ago by heikki.sarin ▴ 10

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1.8k

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EdgeR rank model

7.4 years ago philip.freda • 0

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2.0k

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deseq2 experimental design timecourse rnaseq model

updated 8.1 years ago by Michael Love 43k • written 8.1 years ago by athief ▴ 20

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1.1k

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Deseq2 model

8.4 years ago jrivera • 0

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3.3k

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deseq2 model

updated 9.5 years ago by Simon Anders ★ 3.8k • written 9.5 years ago by da.de ▴ 30

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2.4k

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limma goodness fit linear model

updated 9.9 years ago by Gordon Smyth 52k • written 9.9 years ago by nonCodingGene ▴ 10

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9.4k

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DESeq2 linear model model

updated 3.6 years ago by Michael Love 43k • written 10.1 years ago by andrew.j.skelton73 ▴ 370

17 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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