Bioconductor Heatplus

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heatmap.2 pheatmap complexheatmap heatplus

updated 7.7 years ago by Gavin Kelly ▴ 690 • written 7.7 years ago by Bogdan ▴ 670

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heatmap heatplus

8.8 years ago Bernal-Mizrachi, Leon ▴ 50

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Heatplus Heatplus

updated 11.5 years ago by Dan Tenenbaum ★ 8.2k • written 11.5 years ago by Adriana Munoz ▴ 100

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Heatplus Heatplus

updated 11.8 years ago by Alexander Ploner ▴ 10 • written 11.8 years ago by Guest User ★ 13k

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Heatplus Heatplus

12.0 years ago Hoyles, Lesley ▴ 50

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Annotation GO yeast2 cdf Heatplus Annotation GO yeast2 cdf Heatplus

16.3 years ago lgautier@altern.org ▴ 950

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Annotation GO yeast2 cdf Heatplus Annotation GO yeast2 cdf Heatplus

16.3 years ago Hui-Yi Chu ▴ 160

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Microarray Cancer Heatplus Microarray Cancer Heatplus

16.7 years ago Gregory Warnes ▴ 50

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Heatplus Heatplus

updated 16.7 years ago by James W. MacDonald 67k • written 16.7 years ago by s.khalid@qmul.ac.uk ▴ 50

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Comment: What type of counts data to import for performing Isoform analysis in edgeR by Gordon Smyth 52k

The poster needs to run Salmon with `--numGibbsSamples=50`. I suspect that nf-core just won't do that, so Salmon needs to be run directly.

Comment: What type of counts data to import for performing Isoform analysis in edgeR by ATpoint ★ 4.6k

Probably nf-core did not run with bootstrap/gibbs replicates. Check the code. See salmon docs on how to turn that on.

Comment: What type of counts data to import for performing Isoform analysis in edgeR by mohammedtoufiq91 ▴ 10

@atpoint Thank you. I did wanted to try using the `quant.sf` files from the `salmon` run by referring edgeR user guide example `4.6 Differe…

Comment: athPkgBuilder data source :missing probesets by bobihanigujjar • 0

In this article, we'll explore the demand for unbranded BJJ Gis and the benefits of choosing unbranded Gis for customization. [does anyone …

Comment: Crossover design with limma by SamGG ▴ 360

IMHO, here are the missing annotations treatmentdrug_orderDrugPlac - treatmentplacebo_orderDrugPlac, # effect of drug for the Drug…

Votes

Comment: What type of counts data to import for performing Isoform analysis in edgeR

Answer: What type of counts data to import for performing Isoform analysis in edgeR

Comment: ANOVA like approach of edgeR

Comment: Crossover design with limma

Answer: DESeq2 normalization vs VST vs rlog

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