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kmcp search is very slow for metatranscriptome data #23
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I'm trying to use 'kmcp search' to classify my metagenome data, but the speed is very slow (I killed it after 1 week run) and unacceptable even if I already define @shenwei356 Could you give me some idea about that? |
Hi thanks for using KMCP. Please provide more details:
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Thanks for your quick reply,
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It's weird, please add my Wechat if you have one: shenwei356 |
Are the CPUs ARM? |
If they are, please try the new binaries. I've fixed the search for ARM architectures. BTW, there's no need to set the false positive rate as 0.2 for |
The search results showed a huge number of reads from 16 rRNA genes have thousands of matches, writing results slowed down the search. So these reads should be filtered out before the search using tools like https://github.com/hzi-bifo/RiboDetector.
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