Bioconductor Geneset

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544

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geneset GeneSetEnrichment msigdb

7 months ago Seongsu • 0

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1.4k

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gseGO GeneSet clusterProfiler GeneSetEnrichment

updated 16 months ago by James W. MacDonald 67k • written 16 months ago by manuelsokolov • 0

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2.9k

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singscore GSVA GSEA subtypes geneset

updated 3.9 years ago by Dharmesh D Bhuva • 0 • written 5.7 years ago by Pietro ▴ 40

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1.2k

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GSVA geneset RNASeq TCGA subtypes

5.9 years ago Pietro ▴ 40

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2.1k

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kegg geneset genelist gage package

updated 7.3 years ago by Gordon Smyth 51k • written 7.3 years ago by sup230 ▴ 30

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1.7k

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gseabase geneset

updated 7.8 years ago by Martin Morgan 25k • written 7.8 years ago by siajunren • 0

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1.6k

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cummerbund readcufflinks geneset

8.9 years ago alessio.stevano • 0

7 results • Page 1 of 1

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Comment: CleanUpRNAseq with a GTF that is missing mitochondria annotation data by rcreed • 0

The updated version worked well on my data. Thank you!

Answer: DE analysis on Single cell RNA Seq time course data (using pseudotime) with 5 di by James W. MacDonald 67k

The two contrasts at the bottom are identical but for the sign of the logFC, so you should expect the same results (except for flipped sign…

Comment: Identical samples after deseq2 batch effect removal by Michael Love 42k

Oh, i didn't realize there is another method in the mix here. I would not necessarily trust this "batch correction" method, and suspect o…

Comment: Identifying potentially associated gene set to drug response using GSVA by Kent • 0

Hi @robertc thanks for the reply. I should have explained to you the context first. I am testing over a hundred drugs on patient samples (s…

Answer: BiocNeighbours Utility for k-Nearest Neighbour Classification by James W. MacDonald 67k

You can easily answer this question yourself. ``` > library(BiocPkgTools) Loading required package: htmlwidgets > depdf <- buildPkgDe…

Votes

Answer: CleanUpRNAseq with a GTF that is missing mitochondria annotation data

A: TopGO: How to retrieve the gene list related to a GO ID ?

A: Error in DESeqDataSet : some values in assay are not integers

A: correcting the batch effects in Limma and SVA

Awards • All

Scholar to Haibo Liu ▴ 20