Bioconductor Methylmix

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MethylMix

3.9 years ago Shloka Negi • 0

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methylation epigenomics slurm mpi methylmix

updated 4.5 years ago by Kevin Blighe ★ 4.0k • written 4.5 years ago by parra.sev ▴ 20

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MethylMix

updated 4.6 years ago by Kevin Blighe ★ 4.0k • written 4.6 years ago by sdjnchen • 0

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cancer methylmix methylation betavalues DMvalues

5.1 years ago luciomora8 • 0

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big data methylmix memory problem

updated 6.4 years ago by Martin Morgan 25k • written 6.4 years ago by perdedorium • 0

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MethylMix

6.6 years ago serbulentu • 0

6 results • Page 1 of 1

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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!

Comment: how should I apply "cpg.annotate" to TCGA methylation data in hg38 for HM450K? by Prakash Sah • 0

Thanks James!

Comment: Why select top highly expressed genes based on normalized counts, but then plot by ATpoint ★ 4.6k

I think I explained what the differences between approach 1 and 2 is in my answer. I assume that the tutorial uses vst because it is varian…

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

Thank you ATpoint for your responses. I am a bit confused because the difference between the two approaches is the selection of the genes…

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Comment: can't install tscR

Answer: Csaw normalization strategies - general inquiry

A: DESeq2 interaction term

Comment: Recount3 data correspond to TCGA data

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