Bioconductor Normalisation

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756

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DESeq2 Normalisation Bulkrnaseq Svaseq

11 months ago BioinfGuru ▴ 70

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768

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DESeq2 median-of-ratios normalisation

2.1 years ago msrch • 0

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1.4k

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normalisation DESEQ2

updated 3.7 years ago by swbarnes2 ★ 1.4k • written 3.7 years ago by xavier • 0

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4.0k

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deseq2 StringTie RNA-seq normalisation

updated 5.4 years ago by Michael Love 43k • written 5.4 years ago by JindrichK • 0

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1.7k

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DESEQ2 circRNA normalisation

updated 5.4 years ago by Michael Love 43k • written 5.4 years ago by zoe.ward • 0

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Comment: Adding gene names as row annotations to an RNAseq heatmap made with ComplexHeatm by caroline.zanchi ▴ 10

Thank you ! ![enter image description here][1] In the end I did ```r rn2 <- select(org.Dm.eg.db, row.names(cent_expr_matrix), "GENENAME"…

Answer: Memory issue while using "quickcluster" and "computeSumFactors" functions on sin by James W. MacDonald 68k

The obvious solution is to use cloud computing, which is likely cheaper than getting more RAM for your computer.

Answer: Adding gene names as row annotations to an RNAseq heatmap made with ComplexHeatm by James W. MacDonald 68k

``` library(org.Dm.eg.db) rn <- select(org.Dm.eg.db, row.names(cent_expr_matrix), "SYMBOL","FLYBASE") ## ensure no NA values get propaga…

Comment: Discrepancies in normalised count data vs unnormalised by AMgroup • 0

Thank you for your explanation, that makes sense. Do you have any suggestions on how to deal with this issue? if it is an issue? especially…

Comment: Announcing GBCC 2025: The first-ever joint conference between Bioconductor and G by nytwordlehints • 0

I have always had a great fondness for games, so witnessing their transformation into animated versions is truly a delightful experience. […

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Answer: Adding gene names as row annotations to an RNAseq heatmap made with ComplexHeatm

Deseq2 DE analysis of host-pathogen samples (model separately or jointly?)

Comment: Check removeBatchEffect effectiveness

Answer: Check removeBatchEffect effectiveness

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