Question: how to characterize microbes in a fastq file of sewage microbiome
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gravatar for nazaninhoseinkhan
24 months ago by
Iran, Islamic Republic Of
nazaninhoseinkhan360 wrote:

Dear all,

I have received a fastq file of sewage microbiome.

I want to characterize the bacterial, fungal and viral sequences in this file.

Can I perform this analysis in Galaxy? I do not have any access to linux server and I have to do this using online servers.

And is there any microbial metagenome available for this task?

I will appreciate any advice in advance

Nazanin

ADD COMMENTlink modified 24 months ago by jrj.healey12k • written 24 months ago by nazaninhoseinkhan360
1
gravatar for jrj.healey
24 months ago by
jrj.healey12k
United Kingdom
jrj.healey12k wrote:

What resolution do you want?

Take a look at Kraken. It will bin metagenomic reads in to genera. I think its available through Galaxy

ADD COMMENTlink written 24 months ago by jrj.healey12k
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