Bioconductor Deseqdatasetfrommatrix

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DESeqDataSetFromMatrix dds DESeq2

updated 7 months ago by James W. MacDonald 65k • written 7 months ago by naomi.croft • 0

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DESeqDataSetFromMatrix

2.9 years ago Gian ▴ 30

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help DESeq2 DESeqDataSetFromMatrix rownames

updated 22 months ago by Sanatan • 0 • written 3.0 years ago by dorina.jamniczky • 0

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deseq2 replicates error DESeqDataSetFromMatrix

updated 5.1 years ago by Michael Love 41k • written 5.1 years ago by Yonatan Amzaleg • 0

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deseq2 deseqdatasetfrommatrix rnaseq affy

updated 5.4 years ago by Michael Love 41k • written 5.4 years ago by matthew.sinton • 0

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DESeq2 deseqdatasetfrommatrix r new version

updated 5.7 years ago by Michael Love 41k • written 5.7 years ago by megannj • 0

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deseq2 DESeqDataSetFromMatrix software error

updated 5.9 years ago by Michael Love 41k • written 5.9 years ago by nazaninhoseinkhan • 0

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deseq2 DESeqDataSetFromMatrix duplicate

updated 6.1 years ago by James W. MacDonald 65k • written 6.1 years ago by Assa Yeroslaviz ★ 1.5k

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deseq2 rnaseq featurecounts DESeqDataSetFromMatrix

updated 6.4 years ago by Michael Love 41k • written 6.5 years ago by bioinf ▴ 10

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deseq2 deseqdatasetfrommatrix deseqdataset

updated 6.4 years ago by Michael Love 41k • written 6.4 years ago by jillian.waters • 0

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rangedsummarizedexperiment deseqdatasetfrommatrix deseq2 tximport

6.6 years ago lirongrossmann ▴ 80

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deseq2 DESeqDataSetFromMatrix

updated 6.8 years ago by Michael Love 41k • written 6.8 years ago by zxy5139 • 0

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DESeqDataSet DESeqDataSetFromMatrix rnaseq deseq2

7.8 years ago ErickF ▴ 40

13 results • Page 1 of 1

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Comment: Batch/method effect correction on a cohort of patients with RUVseq and DESeq2 by Alexandre • 0

Hello James, Thank you for your answer and precise exemple ! It is disappointing but makes sense. Best, Alexandre

Comment: How to retrieve gene ontology GO class from gene list? by James W. MacDonald 65k

Yes. The `keys` argument to both `select` and `mapIds` will accept a vector (see `?select` for more information). Also, the [vignette][1] f…

Comment: How to retrieve gene ontology GO class from gene list? by bandconductor • 0

Thanks, this is potentially a much faster way than parsing BiomRt. However, it is only returning one GO term right now (biomaRt returns a f…

Comment: Batch/method effect correction on a cohort of patients with RUVseq and DESeq2 by James W. MacDonald 65k

Both `RUVseq` and `sva` are meant to be used to remove technical variability. The problem is the identification of variability that is tech…

Comment: Batch/method effect correction on a cohort of patients with RUVseq and DESeq2 by Alexandre • 0

Hello James, Thank you very much for your answer and taking the time to read my post. I understand your remark, but isn't the approach o…

Votes

Answer: Batch/method effect correction on a cohort of patients with RUVseq and DESeq2

Answer: Use of negative binomial model for exponential decay rate estimation using DESeq

C: null model and DEXSeqDataSet object in DEXSEQ

A: Are published RNA seq data analyses often wrong in calculating p-values and FDR?

Awards • All

Scholar to James W. MacDonald 65k

Supporter to JKim • 0