Bioconductor Geneset

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558

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geneset GeneSetEnrichment msigdb

8 months ago Seongsu • 0

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1.5k

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gseGO GeneSet clusterProfiler GeneSetEnrichment

updated 17 months ago by James W. MacDonald 67k • written 17 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 52k • written 7.3 years ago by sup230 ▴ 30

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1.7k

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gseabase geneset

updated 7.9 years ago by Martin Morgan 25k • written 7.9 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: How to annotate a limma Elist raw class object with an annotation file by James W. MacDonald 67k

Oh right. My bad. Good for you though, figuring out that it's ENTREZID, not ENTREZGENE. You did a good job of reading the error message in …

Comment: Differential Expression Genes as Independent Variables by James W. MacDonald 67k

Both true, so a poor suggestion on my part. I am also unclear as to how one would use a single observation (the gene expression measures)…

Answer: How to annotate a limma Elist raw class object with an annotation file by giulia.gentile • 0

Good afternoon, Thank you for your explanation and suggestion to overcome the issue by annotating directly from the genome-wide annotation…

Comment: scuttle::perFeatureQCMetrics runs very slow for big scRNA-seq data by Aaron Lun ★ 28k

IIRC loading ~million cells into memory took about 3-5 minutes, but that was with a rather slow filesystem (HDD on a HPC), so YMMV dependin…

Comment: Differential Expression Genes as Independent Variables by Gordon Smyth 52k

Does not allow mixed models. And is for a different purpose to what your aims seem to be: it's purely for prediction rather than for testin…

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Comment: scuttle::perFeatureQCMetrics runs very slow for big scRNA-seq data

A: DESeq2 One-way ANOVA with 3 sample groups?

conumee with Infinium MethylationEPIC v2.0

A: How to bin a GRanges to small bins

C: How to bin a GRanges to small bins

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