Bioconductor Igraph

Showing : igraph • reset

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609

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GRanges igraph

updated 15 months ago by Lluís Revilla Sancho ▴ 730 • written 15 months ago by Bogdan ▴ 670

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520

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WGCNA igraph

17 months ago María José • 0

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1.5k

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igraph network gene corexpression rna-seq

updated 2.7 years ago by Gordon Smyth 50k • written 5.1 years ago by aiswaryabioinfo • 0

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1.1k

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igraph networkanalysis Phylogenetics phyloseq

3.3 years ago Chantel • 0

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2.9k

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R 3.6.2 update problems with igraph and phangorn update Phyloseq igraph phangorn Tutorial

updated 4.3 years ago by Martin Morgan 25k • written 4.3 years ago by crgarcia • 0

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1.2k

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STRINGdb igraph

5.1 years ago Samuel Lee • 0

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1.4k

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scater scran igraph scRNA-Seq rots

updated 5.2 years ago by Aaron Lun ★ 28k • written 5.2 years ago by hamza_karakurt ▴ 50

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899

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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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981

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graph pathways igraph

6.1 years ago genomic8328 ▴ 10

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3.2k

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igraph

6.5 years ago Andrew Box ▴ 10

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1.5k

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QuACN igraph

6.7 years ago lljotall ▴ 10

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2.0k

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igraph spade

updated 6.9 years ago by johnheath346 • 0 • written 8.4 years ago by duncanjamesmurray01 • 0

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1.6k

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installation package installation topaseq igraph LD_LIBRARY_PATH

7.3 years ago jan.soderman • 0

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955

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ppi network analysis igraph

7.9 years ago Abhishek Pratap ▴ 190

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1.2k

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igraph software error adjacency matrix

updated 7.9 years ago by Paul Shannon ▴ 470 • written 7.9 years ago by Angel ▴ 40

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1.1k

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RamiGO R gene ontology igraph

8.2 years ago bkellman • 0

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2.7k

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igraph

updated 8.3 years ago by Hervé Pagès 16k • written 8.3 years ago by Angel ▴ 40

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1.9k

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FEM igraph

updated 8.4 years ago by andrew • 0 • written 8.5 years ago by sirintra ▴ 10

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2.0k

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software error geNet igraph genetclassifier

updated 8.7 years ago by saibar ▴ 20 • written 8.7 years ago by alakatos ▴ 130

19 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

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