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@@ -18,27 +18,27 @@ The command will make a binary in {repo_root}/target/release/genefuse
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target/release/genefuse
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```
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## Some Modifications to the original
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## Notes: Some modifications in this version.
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- It can accept **a file having a list of fusion csvs**. If you give it a file like that instead of a single csv, it outputs report files per fusion csv file.
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- Parallelized part of `matcher::makeIndex()` method to increase performance.
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- Some multi-threading codes were modified to be used in Rust.
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## Performance test
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```
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hg38.fa \
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genefuse \
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-r hg38.fa \
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-f genes/druggable.hg38.csv \
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-1 genefuse.R1.fq \
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-2 genefuse.R2.fq \
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-h report.html \
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-j report.json \
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-t 4
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```
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In a tiny test which ran genefuse 10 times with the above options,
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This version's speed was about 4.5x faster on my machine. \[Rust:159s, Original:709s\] (WSL2 Ubuntu, Ryzen 5800x).
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In a tiny test which ran genefuse 10 times with the above options,
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This version's speed was about **4.5x faster** on my machine. \[Rust:159s, Original:709s\] (WSL2 Ubuntu, Ryzen 5800x).
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#### For more information about this program, please see [**the original repository**]((https://github.com/OpenGene/GeneFuse)).
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