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Getting a list of all tRNA encoding genes for an organism?
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Does manual pre-filtering of the data on read counts violate the assumptions of the dispersion estimation in DESeq2?
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DESEq2: Two factor design without interaction
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plotMA in DEseq2
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Questions regarding convertIDs in the rnaseqGene Package
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Rsamtools failing to parse PEDIGREE header
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How to analyze a known fusion gene expression in RNAseq
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reactome.db: reactome IDs not mapped to pathway names
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Error while reading in peaksets into DiffBind.
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Why I don't use the MethyAnalisis?
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Annotation information for ecoli2.db
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10.8 years ago cporter • 0
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10.8 years ago knaxerova ▴ 10
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How to use brainarray custom cdf with any bioconductor package?
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11.1 years ago • updated 10.8 years ago rishi.dasroy ▴ 20
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Enrichment tests with an array read with read.table
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How to Find Common Dysregulated Genes in Two or More Sets of Microarray Data?
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illumina 450k methylation: Cell composition for saliva
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News: Bioconductor Newsletter - April 2015
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10.8 years ago zhouxiuqing • 0
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Adding gene names to differential gene expression results in DESeq2
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46,717 results • Page 463 of 935
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Comment: Joining different datasets and analyzing using the group-specific condition effe by James W. MacDonald 68k
There is an example of how you can do this in the [DESeq vignette][1]. An alternative would be to fit a linear mixed model using the `vari…
Comment: Joining different datasets and analyzing using the group-specific condition effe by jason.chai • 0
@mikelove Could I please ask if a similar method would work my set of samples? I have 255 samples which have been generated from 76 subject…
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…
Votes
A: DESeq2: What is the unit of DESeq2 normalized read count (VST)? Is it tag per mi
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)
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