Question: Busco lineage database for Staphylococcus pasteuri assembly
0
gravatar for jeetsahu
9 months ago by
jeetsahu10
jeetsahu10 wrote:

I am doing assessment of assembly of Staphylococcus pasteuri genome for the orthologue presence absence using blastn with BUSCO. Which lineage database to use for the same?

genome busco assembly gene • 292 views
ADD COMMENTlink modified 9 months ago by WouterDeCoster40k • written 9 months ago by jeetsahu10

This is a question, not a forum post. Please use a more informative title, for example in this case mentioning BUSCO. In addition, please use sensible tags. As such experts can easily find your question. I have changed this for you now, but keep this in mind for further questions.

ADD REPLYlink written 9 months ago by WouterDeCoster40k

Thanks! will keep this mind.

ADD REPLYlink written 9 months ago by jeetsahu10
2
gravatar for genomax
9 months ago by
genomax70k
United States
genomax70k wrote:

cap-stap

Bacillales would be relevant (download link from Busco site).

ADD COMMENTlink modified 9 months ago • written 9 months ago by genomax70k

What should be the "model" organism to use in augustus for gene prediction?

ADD REPLYlink written 9 months ago by jeetsahu10
1

Why do you want to use Augustus for a bacterial genome. AUGUSTUS is a program that predicts genes in **eukaryotic** genomic sequences.

You may want to use prokka instead (https://github.com/tseemann/prokka ).

ADD REPLYlink modified 9 months ago • written 9 months ago by genomax70k

Thanks for correction. Does prokka also use some model organism for gene prediction ?

ADD REPLYlink modified 9 months ago • written 9 months ago by jeetsahu10
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