Bioconductor Analysis

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505

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analysis R GOfuncR

updated 10 months ago by Lluís Revilla Sancho ▴ 730 • written 10 months ago by Eliza • 0

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1.2k

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non-model enrichment organisms analysis

updated 16 months ago by Guido Hooiveld ★ 3.9k • written 19 months ago by yuhang • 0

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1.7k

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Proteomics analysis

updated 21 months ago by jeroen.gilis ▴ 90 • written 21 months ago by Shakiba • 0

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541

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R analysis p_values RNASeq

updated 2.3 years ago by Sean Davis 21k • written 2.3 years ago by johndavidgriner74 • 0

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889

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microarray protein analysis ProteomeProfiler

updated 4.1 years ago by Gordon Smyth 50k • written 4.1 years ago by hcnbox • 0

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1.8k

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minfi 450k EPIC analysis

updated 4.7 years ago by James W. MacDonald 65k • written 4.7 years ago by maduran • 0

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810

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ddCt import analysis R qRTPCR

updated 4.7 years ago by Zhang, Jitao David ▴ 120 • written 4.7 years ago by mohammedtoufiq91 ▴ 10

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884

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genomics analysis bioinformatics Job

4.9 years ago jmaanaki • 0

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1.4k

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agilent microarrays microrna analysis

6.7 years ago arisarkar88 ▴ 40

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910

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microarray analysis

6.9 years ago arisarkar88 ▴ 40

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1.8k

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mta10 affy analysis

7.7 years ago iankoudinova ▴ 10

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1.6k

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microarray affymetrix microarrays analysis

updated 8.6 years ago by Guido Hooiveld ★ 3.9k • written 8.6 years ago by Michaela.Fuchs • 0

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1.4k

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edger data analysis

8.8 years ago Pau Marc Muñoz Torres ▴ 20

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1.7k

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cummeRbund Script analysis RNAseq cuffdiff

updated 9.0 years ago by andrew.j.skelton73 ▴ 370 • written 9.0 years ago by mfahim • 0

14 results • Page 1 of 1

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Answer: DESEQ2 IHW and Apelgm method for Shrinkage (adding s values to FDR) by Michael Love 41k

> I got many p values that had "1.000000e+00" and padj "1" and stat of "0" when I added the Log threshold of LFC >1 and LFC < -1...is this …

Comment: Trying to use enrichGO by fernanda.backsouza ▴ 10

With all my love, thank you Guido, GOxploreR beeing a big ally for me. I don't know how to be grateful right now.

Comment: DESeq2 output used for PCA plot on R studio by swbarnes2 ★ 1.3k

You didn't generate it with an experiment, you made it up: Your PCA doesn't look like a good RNASeq experiment, because it's not.

Answer: Opposite sign of LFC in count plots of DEGs (DESeq2) by swbarnes2 ★ 1.3k

Your contrast is comparing LGR5 to Homeostasis. The bottom 2 are fine, it's the top one that is wrong. Are you sure this step isn't misla…

Comment: get BM error by James W. MacDonald 65k

I believe you need NCBI Gene IDs for KEGG, in which case you may need to map. The three genes you have shown here don't map, and of those t…

Votes

Answer: How to retrieve gene ontology GO class from gene list?

C: when to apply quantile normalization with voom in limma/voom framework with RNA-

A: How to know if I should use voomWithQualityWeights() or not?

A: Weird results (ribosomal proteins / Y-linked genes) in limma/voom

Awards • All

Teacher to Gordon Smyth 50k