Bioconductor Salmon rna seq

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deseq2 salmon rna seq salmon

updated 6.8 years ago by Michael Love 43k • written 6.8 years ago by danalvoronov ▴ 10

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2.5k

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salmon rna seq deseq2

updated 6.8 years ago by Michael Love 43k • written 6.8 years ago by Bob • 0

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deseq2 gsea tpm rnaseq salmon rna seq

updated 6.9 years ago by Michael Love 43k • written 6.9 years ago by leo_CD • 0

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2.1k

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tximport salmon rna seq de novo

updated 6.9 years ago by James W. MacDonald 68k • written 6.9 years ago by RMRG ▴ 10

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2.4k

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drimseq stageR dtu salmon rna seq

updated 7.1 years ago by Koen Van den Berge ▴ 180 • written 7.1 years ago by fiona.dick91 ▴ 60

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salmon rna seq tximport ruv-seq deseq2

updated 7.3 years ago by Michael Love 43k • written 7.3 years ago by mad6kj • 0

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3.0k

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sleuth R salmon rna seq salmon

7.8 years ago Walter F. Baumann ▴ 10

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1.5k

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salmon rna seq

updated 7.9 years ago by Michael Love 43k • written 7.9 years ago by tanyabioinfo ▴ 30

8 results • Page 1 of 1

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Answer: ROAST compare results with complex design by James W. MacDonald 68k

You are specifying that the last column of your design should be used as the contrast. You should instead use `contrast[,1]`, which will us…

Comment: How to account for solvent controls in DESeq2 when comparing follicular vs lutea by James W. MacDonald 68k

Yes. You can infer that by figuring out what each coefficient measures. Here is your design matrix: ``` > targets ID Name phase G…

Comment: How to account for solvent controls in DESeq2 when comparing follicular vs lutea by snijesh ▴ 200

I would like to clarify whether the command `res <- results(dds, name = "phaseLP.conditionTreated")` is the correct approach to generate …

Comment: How to account for solvent controls in DESeq2 when comparing follicular vs lutea by James W. MacDonald 68k

Not sure I understand. You ask how to do something and then show how one would do so.

Comment: DiffBind getting Fold values of near 0 by littlefishes20 ▴ 10

Same issues. All peaks return to a fold near 0, although they are significant when visualizing in IGV. Please find the MAplot and volcanoPl…

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How to account for solvent controls in DESeq2 when comparing follicular vs luteal phase?

Answer: How to account for solvent controls in DESeq2 when comparing follicular vs lutea

Comment: Using DESeq2 on single cell RNA Seq data of same cell type but different conditi

Can NanoString data be analyzed using DESeq2?

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