Open armish opened 5 years ago
Hi Arman,
Thanks for your interests in my work. The setting was intentional, as I would like to compare the top 10 output from BLAST results.
Best, Jiayi
Hi Jiayi,
As mentioned in that paper, -max_target_seqs X
parameter doesn't guarantee that you will get the best X
hits but it just guarantees that it will give you X
reasonable hits. If I am understanding your code and your comment correctly, you might be misusing this parameter.
Thanks for getting back to me, --Arman
Hi there,
This is a semi-automated message from a fellow bioinformatician. Through a GitHub search, I found that the following source files make use of BLAST's
-max_target_seqs
parameter:Based on the recently published report, Misunderstood parameter of NCBI BLAST impacts the correctness of bioinformatics workflows, there is a strong chance that this parameter is misused in your repository.
If the use of this parameter was intentional, please feel free to ignore and close this issue but I would highly recommend to add a comment to your source code to notify others about this use case. If this is a duplicate issue, please accept my apologies for the redundancy as this simple automation is not smart enough to identify such issues.
Thank you! -- Arman (armish/blast-patrol)