NANOLYSE(1)

okay bestie, welcome to the NanoLyse manual 💖 it's filed under User Commands and it's giving clean-up queen energy 💅

✨ NAME ✨

NanoLyse - remove lambda phage reads from a fastq file 🦋

✨ SYNOPSIS ✨

NanoLyse [-h] [-v] [-r REFERENCE] [--logfile LOGFILE]

✨ DESCRIPTION ✨

ngl this one is so simple it's iconic 🧚 NanoLyse removes reads that map to the lambda genome. You feed it fastq reads through stdin, and it sends the cleaned-up reads out through stdout 🫶

✨ OPTIONS ✨

✨ optional arguments: ✨

• -r, --reference REFERENCE — point it at a reference fasta file to filter against 🎀
• --logfile LOGFILE — tell it where to save the log file, path and filename both 📝

✨ General options: ✨

• -h, --help — pull up the help text and bounce 🙈
• -v, --version — print the version and exit 🌈

✨ EXAMPLES: ✨

here are the three looks to copy, no notes 💅

gunzip -c reads.fastq.gz | NanoLyse | gzip > reads_without_lambda.fastq.gz
gunzip -c reads.fastq.gz | NanoLyse | NanoFilt -q 12 | gzip > filtered_reads_without_lambda.fastq.gz
gunzip -c reads.fastq.gz | NanoLyse --reference mygenome.fa.gz | gzip > reads_without_mygenome.fastq.gz

✨ AUTHOR ✨

Andreas Tille wrote this manpage for the Debian distribution 🌸 and it's totally fine to use it for any other usage of the program 💜

that's the whole manual, bestie 🫶 NanoLyse 1.1.1 from June 2020, NANOLYSE(1). stay iconic 👑✨