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Old 08-18-2016, 04:44 PM   #1
Junior Member
Location: Kyoto

Join Date: Jul 2016
Posts: 1
Default splitting files

I`m working on human heart RNAseq datasets GSE71613
These files are described as paired end data.

So I downloaded files and decompressed by SRE toolkit with --split-3
One of extracted data (example_1) shows relatively good quality, but the others shows low quality and its cycle-quality distribution seems to be strange (example_2)...

What happens?


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Old 08-19-2016, 12:37 AM   #2
Devon Ryan
Location: Freiburg, Germany

Join Date: Jul 2011
Posts: 3,480

Looks like there was a bubble or some major issue in read 2. Truncate read 2 to 70 bases before using the dataset.
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quality control, rnaseq

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