Bioconductor Plgem

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PLGEM

9.6 years ago pstopka • 0

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miRNA Metabolomics Proteomics Normalization plgem miRNA Metabolomics Proteomics plgem

12.3 years ago Norman Pavelka ▴ 140

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plgem plgem

updated 12.6 years ago by Olli Kannaste ▴ 20 • written 12.6 years ago by Norman Pavelka ▴ 140

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Biobase plgem Biobase plgem

13.4 years ago Norman Pavelka ▴ 140

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Biobase plgem Biobase plgem

13.4 years ago Norman Pavelka ▴ 140

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limma plgem limma plgem

13.4 years ago Norman Pavelka ▴ 140

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limma plgem limma plgem

13.4 years ago Norman Pavelka ▴ 140

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limma plgem limma plgem

13.4 years ago Amin Moghaddasi ▴ 130

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Microarray Proteomics limma plgem Microarray Proteomics limma plgem

updated 14.3 years ago by Yolande Tra ▴ 120 • written 14.3 years ago by Pavelka, Norman ▴ 70

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plgem cycle plgem cycle

14.3 years ago Pavelka, Norman ▴ 70

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963

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plgem plgem

14.5 years ago Pavelka, Norman ▴ 70

11 results • Page 1 of 1

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Comment: build samplesheet and plot profile by yf • 0

![enter image description here][1] [1]: /media/images/8ea93bd0-bc90-443d-a332-4701f54a

Answer: I am having issues with bowtie2_build by James W. MacDonald 67k

Is proof.fa an actual FASTA file? Have you tried using the demo data that comes with the package? See the [vignette under Build Bowtie Inde…

Answer: DEG analysis across multiple timepoints, treatments and tissues by Michael Love 43k

Yes, if you think the entire time course can be modified by tissue effects then you would include another set of interaction terms. I re…

Comment: How to visualize these pathways using pathview by Guido Hooiveld ★ 4.1k

FYI: a similar, if not identical issue has been reported before (`pathview` has problems visualizing some pathways, but not all). You likel…

Comment: Why select top highly expressed genes based on normalized counts, but then plot by Quang NN ▴ 10

I see. Thank you ATpoint!

Votes

A: Doubt about the "zero expression" genes or genes with no reads at all in the co

Answer: Unable to install nloptr

Answer: ensembldb for Homo Sapiens organism containing superfluous SYMBOL genes?

C: How does edgeR cpm function calculate log(CPM) values?

Answer: Selection of correct coefficients or contrasts in DESeq2

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