Bioconductor Outlier

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606

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Outlier

updated 22 months ago by ATpoint ★ 4.6k • written 23 months ago by sanchita.bhattacharya • 0

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1.7k

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DESeq2 RNAseq outlier

updated 24 months ago by ATpoint ★ 4.6k • written 24 months ago by James • 0

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2.4k

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RNAseq DESeq2 outlier counts DE analysis

updated 4.7 years ago by Kevin Blighe ★ 4.0k • written 4.7 years ago by DcL-A • 0

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982

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deseq2 outlier normalization removal

updated 4.9 years ago by Michael Love 43k • written 4.9 years ago by knholm • 0

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7.5k

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deseq2 rnaseq PCA hierarchical clustering outlier

8.2 years ago wd ▴ 30

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1.8k

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rnaseq outlier statistics batch effect

updated 8.6 years ago by Gordon Smyth 52k • written 8.6 years ago by grastalt27 • 0

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1.5k

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arrayQualityMetrics Microarray Outlier

updated 9.2 years ago by Wolfgang Huber ★ 13k • written 9.2 years ago by horcsct ▴ 10

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4.8k

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DESeq2 outlier RNASeq

updated 10.1 years ago by Michael Love 43k • written 10.1 years ago by kenneth.daily • 0

8 results • Page 1 of 1

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Comment: input for singR function by iamin053 • 0

Hi Paria, I'm wondering if you were able to get an answer on this please. I would greatly appreciate any comments!

Comment: build samplesheet and plot profile by yf • 0

![enter image description here][1] [1]: /media/images/8ea93bd0-bc90-443d-a332-4701f54a

Answer: I am having issues with bowtie2_build by James W. MacDonald 67k

Is proof.fa an actual FASTA file? Have you tried using the demo data that comes with the package? See the [vignette under Build Bowtie Inde…

Answer: DEG analysis across multiple timepoints, treatments and tissues by Michael Love 43k

Yes, if you think the entire time course can be modified by tissue effects then you would include another set of interaction terms. I re…

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…

Votes

A: Doubt about the "zero expression" genes or genes with no reads at all in the co

Answer: Unable to install nloptr

Answer: ensembldb for Homo Sapiens organism containing superfluous SYMBOL genes?

C: How does edgeR cpm function calculate log(CPM) values?

Answer: Selection of correct coefficients or contrasts in DESeq2

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