Bioconductor Htseqgenie

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HTSeqGenie BAM

updated 6 days ago by James W. MacDonald 65k • written 6 days ago by zh9118 • 0

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HTSeqGenie

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HTSeqGenie

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HTSeqGenie

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HTSeqGenie

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HTSeqGenie

updated 7.7 years ago by Jens Reeder ▴ 40 • written 7.7 years ago by Thomas Sandmann ▴ 90

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Comment: Memory errors using read.bismark? by Juan Higareda • 0

Thanks for the answer. Actually, processing one file and keeping it in memory wasn't the problem, is more processing all the 15 files to bu…

Answer: Differentially expressed genes in monocle pseudotime by Gordon Smyth 50k

You might try the methods in this paper: Cheng J, Smyth GK*, Chen Y* (2023). Unraveling the timeline of gene expression: A pseudotempora…

Comment: DESeq2 a lot of genes showing up as differentially expressed that only have 1 sa by Seyram M. • 0

Thank you Michael for your attention to my question. I am truly grateful. I subsetted the data using lines of codes to include only the g…

Comment: [DiffBind] Obtaining normalization factors by Henry ▴ 10

I see, thank you for your suggestion! I managed to use a separate RLE normalization to obtain the size factors.

Answer: Memory errors using read.bismark? by Peter Hickey ▴ 690

Thanks for sharing an example file. This is a very large non-CpG methylation dataset, which are tricky to work with for a number of reason…

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Comment: [DiffBind] Obtaining normalization factors

Answer: ComplexHeatmap: add pch to rowAnnotation when the input is a data frame with var

Comment: Not fully paired differential gene expression analysis

Answer: GSVA error

Comment: DESeq2 - Plot Nr. Genes vs Variance explained in PCA

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