Bioconductor Tximport

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Tutorial tximport

updated 5 months ago by Michael Love 43k • written 7.8 years ago by nelson.s.garcia ▴ 10

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4.1k

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deseq2 tximport

updated 9 months ago by Michael Love 43k • written 5.9 years ago by zroger499 • 0

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2.8k

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DESeq2 tximport

updated 10 months ago by ben • 0 • written 3.4 years ago by L ▴ 50

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tximport rhdf5

11 months ago Sofia • 0

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1.2k

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kallisto tximport ensembl

updated 8 months ago by Abbott • 0 • written 8 months ago by Nicholas • 0

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kallisto tximport TOIL

12 months ago • updated 11 months ago Nicholas • 0

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812

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tximport

updated 8 months ago by Michael Love 43k • written 8 months ago by Nicholas • 0

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714

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tximport tximeta Bioconductor

updated 9 months ago by ATpoint ★ 5.0k • written 10 months ago by yob4003 • 0

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659

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tximport DESeq2

updated 8 months ago by James W. MacDonald 68k • written 8 months ago by IUH • 0

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Comment: Subsetting DDS object for individual conditions over time by A ▴ 60

Hi @atpoint Thank you for the quick reply! and this makes sense! I will confirm with a corr to see how the SFs differ but also how DE dif…

Answer: Subsetting DDS object for individual conditions over time by ATpoint ★ 5.0k

It would surprise my quite a bit if the size factors would differ notably between subset or not. I would always try to keep the size factor…

Comment: GSEA error by Adithi • 0

Thank you so much. That makes perfect sense to me. I will work on this.

Comment: tximeta cannot open annotation gtf? by Michael Love 43k

Yes, so this is the same type of error you would get if you tried to assemble a *SummarizedExperiment* manually with tximport + GTF process…

Answer: tximeta cannot open annotation gtf? by ATpoint ★ 5.0k

> Timeout of 60 seconds was reached You have to increase the default timeout limits for downloads, `options(timeout=3600)`. GENCODE serve…

Votes

Answer: RNA Seq using Lrt

Answer: DESeq2 LRT Reduced Formula

Answer: DESeq2: LRT or WALD guidance

Answer: GSEA error

Answer: OrgDb for maize

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