Bioconductor Ribosome profiling

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826

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deseq2 differential translation ribosome profiling

updated 4.5 years ago by Michael Love 41k • written 4.5 years ago by katerinadouka91 • 0

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1.2k

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aligning ribosome profiling RNA-Seq

4.7 years ago Crispy • 0

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1.2k

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deseq2 ribosome profiling wald lrt

updated 5.3 years ago by Michael Love 41k • written 5.3 years ago by indrik.wijaya ▴ 20

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2.2k

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deseq2 sequencing ribosome profiling riboseq multiple factor design

updated 5.7 years ago by Michael Love 41k • written 5.7 years ago by kotcha.m ▴ 10

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2.8k

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deseq2 ribosome profiling

updated 5.9 years ago by Michael Love 41k • written 5.9 years ago by xiaozhuo ▴ 10

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1.1k

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R riboseqr ribosome profiling

6.2 years ago bsad • 0

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720

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riboprofiling ribosome profiling

6.7 years ago nicholsonangela7 • 0

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1.9k

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biomart bioconductor grangeslist cds ribosome profiling

updated 6.9 years ago by Hervé Pagès 16k • written 6.9 years ago by Walter F. Baumann ▴ 10

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2.1k

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deseq2 translation efficiency spikes ribosome profiling

7.5 years ago GFM ▴ 20

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1.6k

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riboseqr ribosome profiling

updated 8.2 years ago by Thomas J Hardcastle ▴ 180 • written 8.2 years ago by alper.celik • 0

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1.6k

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R riboseqr ribosome profiling

8.5 years ago ohtack9 • 0

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2.2k

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deseq2 linear model ribosome profiling stats

updated 8.7 years ago by Ryan C. Thompson ★ 7.9k • written 8.8 years ago by Jake ▴ 90

12 results • Page 1 of 1

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Comment: Too many significant genes when integrating gtex and tcga by ATpoint ★ 4.1k

These two datasets are from completely different experiments / batches. It is utterly meaningless to compare them. I would suggest comparat…

Answer: fgsea significant result by ATpoint ★ 4.1k

Set a fixed seed before running this. Note that a FDR of 0.25 in fgsea is wildly and overly lenient. See https://support.bioconductor.o…

Answer: How to use bootRanges to bootstrap small RNA loci (nullranges package) by Poonam • 0

Hi Michael, I think there is something wrong with the generation of nullranges. I was working with small RNA and methylation overlaps. …

Answer: Once again a "Model matrix not full rank" by swbarnes2 ★ 1.3k

Replicate numbers, like the 1 in control_1 are fine in sample names, but never add them to anything else in colData. From the computer's p…

Answer: limma Intercept vs No-intercept models completely changing DMR results? by Gordon Smyth 50k

I'll add a little bit of general advice to James' answer. You seem to have the misunderstanding that you can change the design matrix but …

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Answer: Why does GSEA on edgeR results for randomized samples give highly significant p-

Answer: limma Intercept vs No-intercept models completely changing DMR results?

Answer: CombineArrays for EPIC and EPIC V2

Answer: Too many significant genes when integrating gtex and tcga

Comment: Too many significant genes when integrating gtex and tcga

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