ARDEN-FILTER(1)

📦 version 1.0, in debian bookworm, debian trixie, ubuntu jammy, ubuntu noble, ubuntu questing, ubuntu resolute, ubuntu stonking

✨ NAME ✨

okay bestie, this is the ARDEN-FILTER(1) manual page, hanging out in the User Commands section. The command is arden-filter, and its one-line legend is: filter a SAM file based on the analysis with ARDEN. 💖

🦋 SYNOPSIS 🦋

arden-filter [INPUT SAM] [OUTPUTFILE] [OPTIONS]...

💖 DESCRIPTION 💖

okay so arden-filter is a script to filter and a SAM file based on the analysis with ARDEN. It is necessary to specify the desired cutoffs for RQS,GAPS and MM. Type: python filter -e 1 for printing some examples. ✨

💅 OPTIONS 💅

🎀 Required Arguments: 🎀

yes bestie, these are all listed under “Required Arguments” on this page, so we’re keeping the order exactly as it came. 💅
  • OUTPUTFILE — Outputfilename
  • INPUT — Single SAM file to filter.
  • --version — show program's version number and exit
  • -h, --help — show this help message and exit
  • -r RQS, --rqs=RQS — Threshold for minimum read quality score.. [default: 0]
  • -m MM, --mismatches=MM — Threshold for maximum number of mismatches in an alignment [default: 3]
  • -g GAPS, --gaps=GAPS — Threshold for maximum number of gaps in an alignment. [default: 3]
  • -e PEXAMPLES, --examples=PEXAMPLES — set to 1 if you want to print examples

and that's the whole page, bestie! 💖 This was arden-filter version 2013-04-25, and the manual date is February 2014. Periodt. 🫶✨

📦 where this page comes from