Bioconductor Normalized counts

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1.3k

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scran scater normalized counts

updated 6.0 years ago by Aaron Lun ★ 28k • written 6.0 years ago by Radek ▴ 90

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1.3k

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deseq2 normalized counts

updated 6.1 years ago by Steve Lianoglou ★ 13k • written 6.1 years ago by anaQ • 0

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1.6k

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normalized counts log2

6.3 years ago agdif ▴ 10

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8.2k

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rnaseq deseq2 normalized counts

updated 6.6 years ago by Michael Love 43k • written 6.6 years ago by JoannaF ▴ 10

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5.3k

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deseq2 normalization normalized counts

updated 6.8 years ago by Michael Love 43k • written 6.8 years ago by naets_matthias • 0

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1.8k

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edger batch effect normalized counts

updated 6.9 years ago by Ryan C. Thompson ★ 7.9k • written 6.9 years ago by Yahan • 0

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deseq2 cqn normalization normalized counts

updated 7.2 years ago by Michael Love 43k • written 7.2 years ago by mark.ebbert • 0

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normalized counts grch37 grch38 r bioconductor

7.2 years ago salvocomplicazioni1 • 0

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1.8k

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cn.mops log normalized counts table

updated 7.4 years ago by Günter Klambauer ▴ 540 • written 7.4 years ago by falk.zakrzewski • 0

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1.6k

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deseq2 counts normalized counts

updated 8.4 years ago by Steve Lianoglou ★ 13k • written 8.4 years ago by snamjoshi87 ▴ 40

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2.1k

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shrna edger deseq2 differential expression normalized counts

8.4 years ago Jane Merlevede ▴ 90

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diffbind normalized counts

8.5 years ago GFM ▴ 20

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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…

Comment: Any tools to convert .gff to .gtf format by ControlF5 • 0

Yes, the Appsierra team recently built a tool to convert .gff to .gtf format. [ControlF5][1] is providing the best software testing service…

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A: GWAS analysis with Illumina HumanOmni5-4 BeadChip - recommended software and wor

A: RNA-seq Normalisation - normalise all samples in experiment or only the ones use

Answer: Can DESeq2's design compensate for sequencing experimental design shortcomings?

Comment: Issues with seqlevelsStyle when making custom txdb objects for genomes/annotatio

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