Bioconductor Co-expression

Showing : co-expression • reset

votes

replies

638

views

biologicalnetworkanalysis genomes RNA-Seq co-expression wgcna

15 months ago Fernanda • 0

votes

1.3k

views

network co-expression WGCNA

updated 3.3 years ago by andres.firrincieli ▴ 50 • written 3.3 years ago by ikumar2000 ▴ 10

votes

1.2k

views

wgcna co-expression

updated 6.4 years ago by mikhael.manurung ▴ 280 • written 6.5 years ago by Lin ▴ 50

votes

replies

1.5k

views

wgcna network co-expression rnaseq

updated 6.7 years ago by Peter Langfelder ★ 3.0k • written 6.7 years ago by Arindam ▴ 80

votes

replies

6.3k

views

WGCNA R network co-expression

updated 3.0 years ago by Peter Langfelder ★ 3.0k • written 6.7 years ago by avelarbio46 ▴ 10

5 results • Page 1 of 1

Recent ...

Replies

Comment: Clarification on counting in Rsubread (featureCounts) by Luca • 0

Thanks to both of you for your helpful suggestions. The counting was already strand-specific at both the exon and gene levels. I resolved …

Comment: Clarification on counting in Rsubread (featureCounts) by Gordon Smyth 53k

Have you told featureCounts to do strand-specific counting? As pointed out by Frances Turner, you can lose reads if they overlap the gene …

Answer: Clarification on counting in Rsubread (featureCounts) by Frances Turner ▴ 20

You should look at the summary files produced by feature counts. This gives a breakdown of what happened to reads that were not assigned. Y…

Comment: Incosistencies in buildSNNGraph() function by ATpoint ★ 5.0k

Just played with this a bit and I think it comes down to not having a fixed seed before running the leiden thingy. Same goes for PCA and UM…

Answer: Incosistencies in buildSNNGraph() function by Aaron Lun ★ 29k

The most obvious thing that comes to mind is the RNG seed. `cluster_leiden()` does some random number generation, somewhere deep in the **i…

Votes

Answer: Clarification on counting in Rsubread (featureCounts)

Comment: Clarification on counting in Rsubread (featureCounts)

C: ControlGenes/ housekeeping genes Deseq2

Answer: Clarification on counting in Rsubread (featureCounts)

C: RNA-Seq analysis with Limma/edgeR, time course experiment, aberrant results

Awards • All

Great Question to fl ▴ 20

Popular Question to Lluís Revilla Sancho ▴ 760