OLB 1.6.1 vs 1.8.0

cbrennan

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Join Date: Dec 2008

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#1

OLB 1.6.1 vs 1.8.0

08-10-2010, 05:16 AM

Hello all,

We started using OLB-1.8.0 last week, I've been running some tests. For genomic samples it looks great, an increase in clusters detected, but same high pass filter & mapping rates. However for mRNA & CHiP-Seq samples I'm seeing a decrease in called clusters for half the samples -- has anyone else noticed this? I'm wondering if 1.8.0 is something we should only be using for genomic and stick to 1.6.1 for other types of samples...thoughts?

Christine Brennan
UM DNA Sequencing Core
Ann Arbor, MI 48109
[email protected]
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hoisinjl

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Join Date: Jun 2009

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08-10-2010, 06:35 AM

The only thing we noticed when doing comparisons of 1.8 and 1.6 was that when cluster density was below 200,000 clusters per tile (~350,000 clusters/mm2) that there was either a small increase or a decrease in the number of reads. In all samples with a higher density, we saw at least a 10% increase, including RNA and ChiP-seq samples.
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