COVELS-SE(1)

💖 NAME 💖

covels-SE — the girl who detects transfer RNA genes in genomic sequence 🧬✨

🌸 SYNOPSIS 🌸

covels [-options] <CM file> <seqfile>

🦋 DESCRIPTION 🦋

okay so bestie, covels scans sequences for matches to an RNA covariance model. that's the whole vibe. that's what she does 💅

version 2.4.4 (January 1996) — yeah she's an iconic elder, a vintage queen, we stan 👑

🎀 where options are 🎀

• -c — do the complementary strand too, not just the one strand. she's thorough like that 💅
• -g <fracGC> — set the background expected GC content. default is 0.5 if you don't say anything 🧬
• -h — print the short help plus version info. the "hi bestie what's up" option 🫶
• -o <file> — save the hits into <file>. catch them and keep them 🎀
• -t <thresh> — set the score reporting threshold, aka how picky she's being today 💅
• -w <window> — set the scanning window size 🔍

💀 CRASH PROTECTION OPTIONS: the "in case everything goes feral" section, no cap

• -D <filename> — save the name of the last sequence processed. so if she crashes, you at least know where she was at 😭

🔥 EXPERIMENTAL OPTIONS: these are giving "we're testing something, tread carefully", fr fr

• -E — set epsilon for fast search ⚡
• -F — fast heuristic search 🚀

👑 AUTHOR 👑

this manpage was written by Nilesh Patra for the Debian distribution, and can be used for any other usage of the program. thank you Nilesh, you ate 💖

and that's the whole page, bestie ✨ this was covels-SE 2.0.9+ds, from July 2021, signing off 🎀 stay slay, go find those tRNA genes, iykyk 💜🦋