Bioconductor Latex

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BiocStyle latex

4.5 years ago Freek Manders • 0

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msaprettyprint() latex pdf msa

updated 7.0 years ago by UBod ▴ 300 • written 7.0 years ago by Cecil • 0

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BiocStyle vignettes rmarkdown latex News

7.4 years ago Andrzej Oleś ▴ 750

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msa latex msaPrettyPrint()

7.9 years ago Olorin ▴ 50

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biocstyle vignettes build/check error latex

updated 8.0 years ago by Andrzej Oleś ▴ 750 • written 8.0 years ago by Mattia ▴ 10

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Answer: Incorporating Salmon offset matrix into Wilcoxon DEG analysis by Gordon Smyth 52k

To compute CPM values from edgeR: ``` y <- DGEList(counts = counts, samples = samples, genes = genes, group = samples$Disease_status) y …

Comment: edgeR + tximport: calcNormFactors and the usage of offsets by Gordon Smyth 52k

Follow the vignette. It explains how to call edgeR's cpm function to use the offsets.

Comment: edgeR + tximport: calcNormFactors and the usage of offsets by Andre • 0

But if i want to do another type of analysis like Wilcoxon/Mann-Whitney and want to incorporate salmon offset can i simply use the cpm func…

Comment: DESeq error: counts matrix should be numeric, currently it has mode: character by Kucsera • 0

After applying your suggestion, the following error pops up: ``` Error in mde(x) : 'list' object cannot be coerced to type 'double' ```

Answer: DESeq error: counts matrix should be numeric, currently it has mode: character by ATpoint ★ 4.6k

R thinks your data are characters (e.g. "1", "2", instead of 1, 2) so given that your `counts_data` indeed only contains counts, do: `mo…

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