User: jonathon481

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jonathon48110
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Posts by jonathon481

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Looking for AWS EC2 advice for a metagenomic pipeline
... Hi all, I am looking to setup a EC2 instance/s to run my pipeline for the purpose of virus discovery. I have ~20 libraries that are paired-end (100 bp) (HiSeq 2500) likely around this size 19.4M spots, 3.9G bases. Basic pipeline: 1. Trinity to assemble paired reads 2. Estimate abundance using RS ...
assembly blast aws written 6 months ago by jonathon48110
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RSEM output expected count interpretation
... Hi everyone, I am trying to estimate the abundance of transcripts using Trinity's Estimating Transcript Abundance. I have noticed that for some transcripts I am getting an expected count of 0. I am unsure how to interpret this result. Is this number low and just being rounded down? Link to my outp ...
trinity rsem bowtie2 written 14 months ago by jonathon48110

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