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stray space
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wdecoster committed Apr 19, 2024
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# chopper

Rust implementation of [NanoFilt](https://github.com/wdecoster/nanofilt)+[NanoLyse](https://github.com/wdecoster/nanolyse), both originally written in Python. This tool, intended for long read sequencing such as PacBio or ONT, filters and trims a fastq file.
Rust implementation of [NanoFilt](https://github.com/wdecoster/nanofilt)+[NanoLyse](https://github.com/wdecoster/nanolyse), both originally written in Python. This tool, intended for long read sequencing such as PacBio or ONT, filters and trims a fastq file.
Filtering is done on average read quality and minimal or maximal read length, and applying a headcrop (start of read) and tailcrop (end of read) while printing the reads passing the filter.

Compared to the Python implementation the scope is to deliver the same results, almost the same functionality, at much faster execution times. At the moment this tool does not support filtering using a sequencing_summary file or filtering on GC content. If those features are of interest then please reach out.
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