Bioconductor Nanostringdiff

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817

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NanoStringDiff clusterProfiler fgsea

11 months ago pg45863 ▴ 10

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840

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DESeq2 NanoStringDiff limma

11 months ago pg45863 ▴ 10

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622

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GEOquery MicroarrayData Normalization Microarray NanoStringDiff

updated 14 months ago by James W. MacDonald 65k • written 14 months ago by Aleksandra • 0

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509

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NanoStringDiff

updated 16 months ago by James W. MacDonald 65k • written 16 months ago by Paraskevi • 0

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545

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DifferentialExpression NanoStringDiff

2.4 years ago sanrie10 • 0

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1.5k

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limma edgeR DESeq2 NanoStringDiff

updated 2.6 years ago by James W. MacDonald 65k • written 2.6 years ago by reberya • 0

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966

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Nan NanoStringDiff

2.8 years ago choijamts • 0

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1.9k

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NanoStringDiff NanoString nCounter DE analysis

updated 5 months ago by georgersmith • 0 • written 4.7 years ago by lim6432 ▴ 50

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651

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NanoStringDiff

3.1 years ago YM • 0

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892

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Bioconductor Transcriptomics NanoStringDiff

updated 3.5 years ago by Laurent Gatto 1.6k • written 3.5 years ago by Pedro ▴ 10

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NanoStringDiff

4.3 years ago stephen.pollo • 0

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866

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NanoStringDiff GLM Gene expression

updated 4.7 years ago by James W. MacDonald 65k • written 4.7 years ago by Guillaume Robert • 0

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NanoStringDiff

updated 3 months ago by pjanas • 0 • written 4.9 years ago by noelleenright ▴ 10

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nanostringdiff nanostring NanoStringDiff

updated 5.9 years ago by James W. MacDonald 65k • written 5.9 years ago by casey.rimland ▴ 150

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nanostring NanoStringDiff design and contrast matrix differential gene expression ncounter

6.8 years ago c.kohler • 0

15 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