Bioconductor Genomic

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genomic AnnotationHub GenomicRanges org.Hs.eg.db

3.9 years ago • updated 3.7 years ago rohitsatyam102 ▴ 20

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1.7k

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dnacopy dnaseq genomic cn.mops cnv

updated 6.3 years ago by Günter Klambauer ▴ 540 • written 6.3 years ago by Cased • 0

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1.5k

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IRanges GenomicRanges

updated 3.9 years ago by James W. MacDonald 67k • written 3.9 years ago by kalamari • 0

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1.1k

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GenomicRanges Genomic

3.2 years ago Daniel Cameron ▴ 40

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990

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computational genomic big data bioinformatics Job

5.3 years ago jmaanaki • 0

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689

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genomic EpiDISH

updated 21 months ago by shijieczheng • 0 • written 21 months ago by bony.dekumar ▴ 10

6 results • Page 1 of 1

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Comment: GSVA ssGSEA vs. Broad implementation of ssGSEA by Robert Castelo ★ 3.4k

Thanks for your analysis of the differences between ssGSEA 2.0 and ssGSEA 1.0, as I said in my previous message, please file an issue in th…

Comment: GSVA ssGSEA vs. Broad implementation of ssGSEA by Bob ▴ 10

Thanks for the prompt answer! I looked into the "original ssGSEA R-implementation" ([https://github.com/GSEA-MSigDB/ssGSEA-gpmodule][1]), u…

Comment: RNASeq Time Course Question by jihoon.kim.1495 ▴ 10

I see. You'd mean clustering using only the right 5 columns (in the above example), right?

Comment: RNASeq Time Course Question by Michael Love 42k

Yes. If you wanted to focus on differences, you could cluster on the subset of coefficients representing differences (interactions).

Comment: RNASeq Time Course Question by jihoon.kim.1495 ▴ 10

Thanks for the clarification. With regards to your last comment about the clustering by the coefficients/log2fold changes, I wanted to cl…

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C: Vertical line at A=0, nothing else, on MA plot

Comment: RNASeq Time Course Question

Answer: RNASeq Time Course Question

Comment: limma plotMDS - logFC inverted?

DESeq2 testing ratio of ratios (RIP-Seq, CLIP-Seq, ribosomal profiling)

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