Bioconductor Svaseq

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476

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RUVSeq svaseq

17 months ago Tongjun • 0

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927

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RNASeq sva svaseq

updated 23 months ago by James W. MacDonald 64k • written 23 months ago by Bex • 0

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666

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limma sva Leafcutter SVAseq

2.2 years ago georgia.katsoula ▴ 40

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647

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sva svaseq surrogate variable analysis

updated 3.7 years ago by James W. MacDonald 64k • written 3.7 years ago by Mozart ▴ 30

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811

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svaseq sva

4.7 years ago flippy23 • 0

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771

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MEDIPS svaseq sva

updated 4.9 years ago by Lukas Chavez ▴ 570 • written 4.9 years ago by tofukaj • 0

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1.3k

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deseq2 svaseq

4.9 years ago bioinfo • 0

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1.3k

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edger sva svaseq limma

updated 5.6 years ago by Ryan C. Thompson 7.8k • written 5.6 years ago by cats_dogs ▴ 20

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2.9k

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DESeq2 sva svaseq batch effect correction

5.9 years ago L_K • 0

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931

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svaseq batcheffectcorrection

6.1 years ago burcu.atasu • 0

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1.3k

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ruvseq svaseq edaseq

updated 6.1 years ago by davide risso ▴ 930 • written 6.1 years ago by llo ▴ 10

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1.1k

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sva svaseq batch effect batch effects batch effect correction

6.3 years ago vedran.franke • 0

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1.6k

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deseq2 svaseq

updated 6.3 years ago by Michael Love 41k • written 6.3 years ago by gpalidwor ▴ 10

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1.5k

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sva svaseq

updated 6.5 years ago by Guido Hooiveld ★ 3.8k • written 6.5 years ago by wamiqsaifi • 0

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2.4k

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limma sva svaseq

updated 6.8 years ago by Aaron Lun ★ 28k • written 6.8 years ago by Bogdan ▴ 670

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1.6k

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svaseq dexseq

updated 6.8 years ago by Alejandro Reyes ★ 1.9k • written 6.8 years ago by tofukaj • 0

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2.0k

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svaseq combat sva RANseq batcheffect removebatcheffect

updated 7.1 years ago by Jakub ▴ 50 • written 7.1 years ago by amoltej ▴ 10

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4.7k

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deseq2 svaseq

7.2 years ago Akula, Nirmala NIH/NIMH [C] ▴ 190

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1.5k

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deseq2 sva svaseq

updated 7.3 years ago by Michael Love 41k • written 7.3 years ago by szenitha ▴ 20

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2.2k

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sva svaseq batcheffectcorrection

updated 7.3 years ago by Jeff Leek ▴ 640 • written 7.3 years ago by szenitha ▴ 20

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3.4k

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deseq2 sva svaseq pca

7.5 years ago Peter Alto ▴ 10

21 results • Page 1 of 1

Recent ...

Replies

Answer: Using STAR's readspergene.tab.out outputs to make gene-level count matrix for DE by James W. MacDonald 64k

The short answer is that you don't. `tximport` is meant to summarize transcript abundance estimates at the gene level, and as you might ima…

Comment: Inconsistent results in DiffBind by ATpoint ★ 3.6k

One is the "raw" logFCs, not corrected for the standard error of the logFCs, the other one the shrunken logFCs from DESeq2 lfcShrink, "corr…

Answer: Can't download Bioconductor by James W. MacDonald 64k

[You need to update][1]. [1]: https://cran.r-project.org/web/packages/BiocManager/vignettes/BiocManager.html#basic-use

Comment: Can't download Bioconductor by ATpoint ★ 3.6k

Please see especially the 1st and 2nd point in https://www.bioconductor.org/help/support/posting-guide/#keypoints

Comment: Small RNA-seq Analysis DESEQ2 : Unexpected Significance by Michael Love 41k

With 3 vs 3, when one sample increases from 50 to 5000, this can lead to rejection of null hypothesis. I'm not surprised with the above cou…

Votes

Answer: biomaRt not working - lazy table error

Answer: Using STAR's readspergene.tab.out outputs to make gene-level count matrix for DE

Comment: Small RNA-seq Analysis DESEQ2 : Unexpected Significance

Answer: What is the meaning of "CpG interrogation" and "single nucleotide extension(SBE)

Answer: WGCNA documentation not available

Awards • All

Popular Question to Assa Yeroslaviz ★ 1.5k

Scholar to Gordon Smyth 49k

Popular Question to Lluís Revilla Sancho ▴ 720

Popular Question to Frederik Ziebell ▴ 20