Bioconductor BatchQC

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584

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BatchQC BatchEffect rnaseqGene Normalization

updated 7 months ago by jessica.mcclintock ▴ 10 • written 8 months ago by Đình Vinh • 0

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685

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BatchQC BatchEffect RNASeq

updated 7 months ago by jessica.mcclintock ▴ 10 • written 8 months ago by ttt • 0

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904

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BatchQC batchinDeseq2. columnsincolData.

8 months ago Galina • 0

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2.0k

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BatchQC RNASeqData sva BatchEffect

updated 19 months ago by ATpoint ★ 4.6k • written 19 months ago by amnahsiddiqa ▴ 10

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953

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TCGAbiolinks BatchQC BatchEffect

updated 17 months ago by wrab425 • 0 • written 23 months ago by snijesh ▴ 200

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1.1k

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BatchQC

updated 3.9 years ago by Malcolm Cook ★ 1.6k • written 3.9 years ago by Josh • 0

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964

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BatchQC RNA-seq R Shiny batch-effect

4.8 years ago manninm • 0

7 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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