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COMBINE-Australia / RNAseq-R

RNAseq analysis in R workshop, originally taught: http://combine-australia.github.io/2016-05-11-RNAseq/
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ATGC content percentages don't make sense #14

Closed hdashnow closed 8 years ago

hdashnow commented 8 years ago

> actg <- atgcContent(filename="SRR1552450.fastq.gz") actg

     A      T G      C      N
[1,] 0 0.0083 0 0.0167 1.1167

These percentages don't add up to 100 or 1. Bug in atgcContent? Something weird in the data?

bphipson commented 8 years ago

I don’t actually know what’s going on with that function. I would be tempted to remove that from the material.

From: Harriet Dashnow [mailto:notifications@github.com] Sent: Friday, 13 May 2016 11:24 AM To: COMBINE-Australia/RNAseq-R Subject: [COMBINE-Australia/RNAseq-R] ATGC content percentages don't make sense (#14)

actg <- atgcContent(filename="SRR1552450.fastq.gz") actg

 A      T G      C      N

[1,] 0 0.0083 0 0.0167 1.1167

These percentages don't add up to 100 or 1. Bug in atgcContent? Something weird in the data?

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hdashnow commented 8 years ago

Okay, thanks @bphipson. I'll remove it.