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Recent Replies
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GenoMax
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> After I find some differences between the assembly and the reference, how can I decide confident variants without the depth?
Don't think…
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Did you check whether your species' fasta file is named correctly? From memory Orthofinder will pull in files ending in .fa and .fasta in t…
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Thank you for your kind answer. May I ask some following questions.
However, I only have full access to assembled genomes, and some to ra…
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Ok after reviewing the HHBlits source code I realize the issue is that the hhr file and the a3m file contain apples and oranges, and it doe…
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I checked the file and it's definitely proteins. I had previously run BUSCO on protein mode on the same file and got >90% completeness. I r…
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I ran BUSCO on the predicted proteome in protein mode and got >91% completeness. I also removed multiple isoforms from the same gene.
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Hey, thanks for the reply! I think I didn't make the question very understandable. I do know how to code for this, the wall I have hit is *…
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Not enough detail to make a definitive recommendation. Since this should not happen, an educated guess is that you are doing something wron…
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A reason may be that your gene prediction is off. Did you run BUSCO on your predicted proteome? If the gene prediction is ok, then you shou…
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> Can you comment on these, If they look good ?
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Hi,
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hello @colindaven
I ran the INSPECTOR tool you mentioned on the genome assemblies. Below are stats for one of my sample (othere were simi…
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