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Old 07-17-2013, 10:32 AM   #1
morning latte
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Default Illumina Hi Seq 2000 for viral metagenomics

Hello, I plan on submitting eight environmental samples for Illumina Hi seq 2000 (2X100 cycles, paired end) to look at viral communities. I've heard that there is a way to estimate how many lanes are enough with regard to the number of samples. Is one lane enough for eight samples in terms of looking at viral communities as virus has small genome size? Thanks.
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Old 07-17-2013, 12:02 PM   #2
GenoMax
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You can expect to get ~200 million clusters on a HiSeq 2000 lane (provided you have good libraries) (200 mil X 100 x 2 bp total). You should be able to calculate theoretical yield of viral genomes using an average genome size to get ~viral genomes/lane.
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Old 07-17-2013, 01:34 PM   #3
Calluna
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Here are a couple of links that should help:

http://res.illumina.com/documents/pr...alculation.pdf

http://www.illumina.com/CoverageCalculator
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