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Forum: Metagenomics 09-23-2012, 03:05 AM
Replies: 3
Views: 3,889
Posted By faozhi
or EMIRGE? https://github.com/csmiller/EMIRGE

or EMIRGE? https://github.com/csmiller/EMIRGE
Forum: Illumina/Solexa 04-05-2012, 05:36 AM
Replies: 5
Views: 3,089
Posted By faozhi
You have to map the reads to the reference...

You have to map the reads to the reference genome. To count, you might want to try cufflinks.
Forum: Metagenomics 04-04-2012, 10:09 PM
Replies: 12
Views: 6,124
Posted By faozhi
I would trim the reads (based on qual and remove...

I would trim the reads (based on qual and remove adapters), then start assembling.
If you would like to know who are there, you could use MG-RAST or just blastn your trimmed reads against greengenes...
Forum: Bioinformatics 04-04-2012, 10:03 PM
Replies: 5
Views: 2,424
Posted By faozhi
I know I didn't combine them during trimming...

I know I didn't combine them during trimming based on qual...
Forum: RNA Sequencing 12-05-2011, 11:04 PM
Replies: 0
Views: 1,592
Posted By faozhi
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