Bioconductor Cbioportaldata

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cBioPortalData

updated 8 weeks ago by Marcel Ramos 700 • written 8 weeks ago by Astrid Deschênes • 0

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cBioPortalData

7 months ago karam • 0

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cBioPortalData

21 months ago • updated 20 months ago ryan.hagenson • 0

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RaggedExperiment cBioPortalData

updated 20 months ago by Marcel Ramos 700 • written 21 months ago by ryan.hagenson • 0

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cBioPortalData

updated 10 months ago by Ndimensional ▴ 20 • written 3.1 years ago by andreas.wernitznig • 0

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MultiAssayExperiment cBioPortalData

updated 3.1 years ago by Kevin Blighe ★ 3.9k • written 3.1 years ago by Javier • 0

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Answer: Numerical differences in DESeq2 output depending on different design matrix cons by Michael Love 42k

Yes there can be small numerical differences in the estimated quantities because of how the algorithms decide to stop iterating.

Answer: DESeq2- Mysterious interaction suppresses DEGs by Michael Love 42k

Removing samples from one group nevertheless changes the variance estimation (dispersion) for all comparisons. So you could have pushed one…

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?

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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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