Bioconductor Isoforms

Showing : isoforms • reset

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1.3k

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isoforms DESeq2

3.8 years ago arfranco ▴ 130

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3.3k

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RATs RNA-Seq Isoforms DTU expression

updated 6.5 years ago by fruce_ki ▴ 20 • written 6.5 years ago by UserAnonyme • 0

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isoforms diffrential expression noncoding rna TSIS isoformswitchanalyzeR

7.7 years ago rbenel ▴ 50

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1.4k

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dexseq differential isoform usage isoforms summarizeoverlaps granges

7.8 years ago A ▴ 60

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1.9k

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cummerbund heatmap isoforms transcript_id

8.8 years ago domenico.somma • 0

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4.7k

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dexseq bitseq cuffdiff Differential exon usage isoforms

10.6 years ago elle ▴ 10

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3.1k

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edgeR ruvseq rnaseq isoforms

10.7 years ago • updated 10.6 years ago sergio.espeso-gil • 0

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1.8k

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DEXSeq transcripts isoforms

updated 10.7 years ago by Alejandro Reyes ★ 1.9k • written 10.7 years ago by peter_venhuizen • 0

8 results • Page 1 of 1

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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

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