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Improve the computation efficiency of the local module: EXTRACTCDIAMONDREADS #27

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LilyAnderssonLee opened this issue Oct 8, 2024 · 1 comment
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enhancement New feature or request

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Description of feature

awk was used in these two modules, but it often consumes a lot of memory, so it should be replaced with a python script located in the bin/ directory

@LilyAnderssonLee LilyAnderssonLee added the enhancement New feature or request label Oct 8, 2024
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For DIAMOND/BLASTX, an alignment is reported with a default e-value of 0.001, which provides high sensitivity but lower specificity. To reduce false positives, a parameter --params.evalue can be introduced. An e-value between 1e-10 and 1e-5 is moderate filtering (balanced sensitivity and specificity), while an e-value < 1e-20 is considered strict filtering (high specificity but lower sensitivity).

@LilyAnderssonLee LilyAnderssonLee changed the title Improve the computation efficiency of the local module: EXTRACTCENTRIFUGEREADS & EXTRACTCDIAMONDREADS Improve the computation efficiency of the local module: EXTRACTCDIAMONDREADS Jan 10, 2025
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