fastp¶
fastp provides all-in-one preprocessing for FastQ files. The fastp bundle packages version 0.23.2.
Usage example¶
The following command can be executed in the terminal to load the bundle:
The fastp command can be run as shown as below:
The fastp_shell command can be run for a shell in the fastp bundle.
Performance notes¶
No performance notes available
Recommended resources per session¶
No recommended resources available
Benchmarks¶
No benchmarks available.
Community guides and tutorials¶
- No community guides available.
Official site and documentation¶
Licensing information¶
fastp is licensed under the MIT license.
Primary citation¶
- Shifu Chen. 2023. Ultrafast one-pass FASTQ data preprocessing, quality control, and deduplication using fastp. iMeta 2: e107. https://doi.org/10.1002/imt2.107
- Shifu Chen, Yanqing Zhou, Yaru Chen, Jia Gu; fastp: an ultra-fast all-in-one FASTQ preprocessor, Bioinformatics, Volume 34, Issue 17, 1 September 2018, Pages i884?i890, https://doi.org/10.1093/bioinformatics/bty560
External guides and resources¶
- If you know of a guide/tutorial that you have found useful, please help us share it by contacting the HPC staff at hpc@ufs.ac.za