Bioconductor Time-series

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time-series DESeq2 RNASeq timecoursedata TimeCourse

updated 17 months ago by ATpoint ★ 4.6k • written 17 months ago by Debebe • 0

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834

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DESeq2 time-series timecoursedata timecourse multifactorial

updated 2.2 years ago by Michael Love 43k • written 2.2 years ago by arshad1292 • 0

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1.1k

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time-series mfuzz replace=FALSE

2.7 years ago soda ▴ 80

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half-life DESeq2 time-series

updated 3.8 years ago by Michael Love 43k • written 3.8 years ago by Xianjun Dong ▴ 10

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2.2k

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deseq2 cancer rna-seq time-series

5.5 years ago mah19 • 0

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3.3k

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deseq2 time-series design matrix edger

updated 5.9 years ago by Michael Love 43k • written 5.9 years ago by Assa Yeroslaviz ★ 1.5k

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deseq2 time-series without replicate

updated 6.5 years ago by Michael Love 43k • written 6.5 years ago by bahlv • 0

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1.5k

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deseq2 timecourse multiple time points time-series

updated 6.6 years ago by Michael Love 43k • written 6.6 years ago by zhangfei-123 • 0

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1.7k

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DESeq2 time-series

updated 7.3 years ago by Michael Love 43k • written 7.3 years ago by gtechbio ▴ 10

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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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