Bioconductor Pathway

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4.8k

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R ClusterProfiler Enrichment Pathway

updated 11 months ago by Guido Hooiveld ★ 4.0k • written 4.1 years ago by t.b.kuipers • 0

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4.5k

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pathview KEGGgraph gage pathway pathway analysis

6.8 years ago Luo Weijun ★ 1.6k

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1.8k

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pathview kegg r pathway

4.5 years ago AZ ▴ 30

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1.5k

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deseq2 pathway ihw

updated 5.2 years ago by Michael Love 42k • written 5.3 years ago by guidobarzaghi ▴ 20

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1.4k

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pathway paxtools

9.6 years ago Guido Leoni ▴ 200

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1.1k

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pathway KEGG annotation annotationhub

updated 4.0 years ago by James W. MacDonald 65k • written 4.0 years ago by Bogdan ▴ 670

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1.1k

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limma pathway

updated 4.7 years ago by mikhael.manurung ▴ 270 • written 4.7 years ago by Dario Strbenac ★ 1.5k

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986

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pathway KEGGREST GSEA

updated 3.2 years ago by Kevin Blighe ★ 3.9k • written 3.2 years ago by MOHAMMAD • 0

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942

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pathway SBGNview Reactome pathview PANTHER

written 3.1 years ago by Luo Weijun ★ 1.6k

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917

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igraph miR2Pathway Pathway page_rank

updated 6.1 years ago by Martin Morgan 25k • written 6.1 years ago by genomic8328 ▴ 10

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787

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kegg pathway pathview

5.2 years ago Ahdee ▴ 50

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742

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IHW deseq2 Pathway

updated 5.2 years ago by Michael Love 42k • written 5.2 years ago by guidobarzaghi ▴ 20

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664

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pathway ORA limma CAMERA DGE

updated 9 months ago by Gordon Smyth 50k • written 9 months ago by manuelsokolov • 0

13 results • Page 1 of 1

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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?

Comment: DESeq2- Mysterious interaction suppresses DEGs by shaunpeterson • 0

The images I tried to attach didn't attach. Here is the PCA (MDS) of all the samples, with the Cortex outlier highlighed. ![enter image de…

Comment: STRINGdb : error with string_db$plot_network() by damian.szk ▴ 80

ok. Forcing non-secure protocol should not be needed anymore, due to changes in the underlying library. However, I will look at why "HTTP" …

Votes

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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Popular Question to Vincent J. Carey, Jr. 6.7k

Popular Question to Koen Van den Berge ▴ 180