Bioconductor TXT

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EdgeR normalization fastq txt TMM

updated 23 months ago by Gordon Smyth 50k • written 8.4 years ago by hamidrezarazzaghian • 0

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Affymetrix CEL TXT

updated 4.4 years ago by James W. MacDonald 65k • written 4.4 years ago by pbachali ▴ 50

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r TXT codelink

8.8 years ago Agaz Hussain Wani ▴ 260

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qPCRset object nondetects r package txt

updated 6 months ago by Nat.Nataren • 0 • written 6.3 years ago by s.m.may • 0

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Annotation GEO TXT

updated 4.5 years ago by Sean Davis 21k • written 4.5 years ago by ekl • 0

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Files TXT

updated 4.5 years ago by Gordon Smyth 50k • written 4.5 years ago by ekl • 0

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read.table TXT

updated 4.5 years ago by James W. MacDonald 65k • written 4.5 years ago by ekl • 0

7 results • Page 1 of 1

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Comment: Batch/method effect correction on a cohort of patients with RUVseq and DESeq2 by SamGG ▴ 350

Is useless the assumption that the majority of genes have no variation in expression (bearing in mind that they are distributed over the en…

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…

Votes

Answer: Cross-species analysis - how to compute the mid parent value?

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

Awards • All

Scholar to James W. MacDonald 65k

Supporter to JKim • 0