Bioconductor Deseq2

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DESeq2 PCAplot RNA-Seq DesignModel

17 hours ago • updated 16 hours ago shaunpeterson • 0

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133

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DESeq2

updated 4 hours ago by JKim • 0 • written 23 hours ago by Ken C • 0

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234

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DESeq2 timecoursedata GeneExpression

updated 1 day ago by ATpoint ★ 4.1k • written 3 days ago by pangtaihin • 0

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104

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DESeq2 DifferentialExpression

updated 2 days ago by Michael Love 42k • written 3 days ago by Kasper • 0

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DESeq2 normalization Normalization acrossspecies

updated 3 days ago by Michael Love 42k • written 4 days ago by piemmea • 0

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487

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DESeq2 pcaExplorer

updated 3 days ago by BioinfGuru ▴ 30 • written 4 days ago by Eric Katagirya • 0

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226

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DESeq2 eigencorplot PCAtools

4 days ago • updated 1 day ago BioinfGuru ▴ 30

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364

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DESeq2 DifferentialExpression rnaseqGene DifferentialRegulation

10 days ago • updated 6 days ago sajadahmad41454 • 0

8 results • Page 1 of 1

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Comment: Numerical differences in DESeq2 output depending on different design matrix cons by JKim • 0

The 1st model has an interaction term, but the 2nd model doesn't have the interaction term. That makes the difference.

Comment: Ensembl plants at annotationHub? by Daniele • 0

Hi, I'm using Ensembl Plants release 59 with the IWGSC RefSeq v1.1 gene annotation. Thanks a lot for replying so quickly!

Comment: Numerical differences in DESeq2 output depending on different design matrix cons by swbarnes2 ★ 1.4k

If you restrict yourself to, say, genes with a baseMean > 50, are the numerical differences between the two designs significant?

Comment: DESeq2- Mysterious interaction suppresses DEGs by shaunpeterson • 0

The images I tried to attach didn't attach. Here is the PCA (MDS) of all the samples, with the Cortex outlier highlighed. ![enter image de…

Comment: STRINGdb : error with string_db$plot_network() by damian.szk ▴ 80

ok. Forcing non-secure protocol should not be needed anymore, due to changes in the underlying library. However, I will look at why "HTTP" …

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Answer: Error while installing BiocManager::install("org.Vdahliae.eg.db")

Comment: How can I create a eigencorplot of pca created from deseq2 object with PCAtools

Answer: Importing a GraphNEL into Cytoscape with RCy3 with error: "Error in cyrestPUT(pa

Rsubread counting peaks ATACseq

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