Question: illumina hiseq data, enviromental sample, how to look for some functional genes, os: ubuntu
gravatar for li.4001
4.5 years ago by
United States
li.40010 wrote:

New to this area, I'm trying to look for some functional genes from environmental microbiome sample. illumina hiseq data generated, and i'm trying to blast the data with my functional gene database, any recommended tools? Or where to start with?

operating system is Ubuntu 12.04

In addition, is there any recommended tools for assembly, annotation, and abundance analysis?

Thanks a lot!

ADD COMMENTlink written 4.5 years ago by li.40010

The important information to give is what kind of data? Rna-Seq or DNA-Seq? What is your functional gene database contains?

ADD REPLYlink modified 5 months ago by RamRS27k • written 4.5 years ago by geek_y11k

It's DNA-seq.

The database is an antibiotic resistant genes nucleotide database, contains 7279 genes.

ADD REPLYlink written 4.4 years ago by li.40010
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