Question: Comparison of annotated genomes
1
gravatar for marina-orlova
4.6 years ago by
Russian Federation
marina-orlova70 wrote:

Hello 

I need to compare a de-novo assembled scaffold to reference genome (proteins etc.). We have prokka output for pathogenic strain of e.coli (gbk with annotation, gff, faa with proteins etc.). Are there any tools  capable to compare proteins list in gbk or faa files?

ADD COMMENTlink modified 4.5 years ago by Biostar ♦♦ 20 • written 4.6 years ago by marina-orlova70

You can have a look to get some idea

http://www.plosone.org/article/fetchObject.action?uri=info%3Adoi%2F10.1371%2Fjournal.pone.0006291&representation=PDF

 

ADD REPLYlink written 4.6 years ago by HG1.1k

Have a look here : http://www.biomedcentral.com/1471-2105/15/227    (Figure 1 explains well what the tool does)

This may help you.

ADD REPLYlink written 4.6 years ago by Juke-341.8k
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