Bioconductor Resultsnames

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DESeq2 resultsNames lfcShrink

updated 2.3 years ago by ATpoint ★ 4.6k • written 2.3 years ago by eve.olszanowski • 0

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2.3k

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resultsNames DESeq2 coefficient

3.7 years ago Jane ▴ 10

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854

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resultsNames DESeq2

written 3.9 years ago by efratsh ▴ 10

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1.1k

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pairwise deseq2 extracting contrasts resultsnames results deseq2

updated 6.1 years ago by Michael Love 43k • written 6.1 years ago by Ricardo Rodrigues • 0

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1.3k

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deseq2 resultsnames batch effect contrast

updated 7.2 years ago by Michael Love 43k • written 7.2 years ago by pkachroo ▴ 10

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deseq2 DESeq2 resultsNames

7.4 years ago davichen ▴ 10

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1.3k

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deseq2 resultsnames

updated 7.4 years ago by Michael Love 43k • written 7.4 years ago by mrigaya.mehra ▴ 10

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deseq2 rnaseq resultsnames

7.6 years ago zeynep.nenseth • 0

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DESeq deseq2 resultsnames

8.5 years ago • updated 8.4 years ago akaever ▴ 30

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2.4k

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deseq2 resultsnames multifactorial design

updated 8.6 years ago by Michael Love 43k • written 8.6 years ago by Ira ▴ 10

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3.2k

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deseq2 relevel resultsNames multifactorial design

updated 8.8 years ago by Michael Love 43k • written 8.8 years ago by rclaire ▴ 20

11 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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