REPEATMASKER-RECON(1)

👑 REPEATMASKER-RECON 👑

okay bestie, so this is a User Command and honestly? it's giving bioinformatics main character energy. it lives in section 1 of the manual, and it's called repeatmasker-recon ✨

🌸 NAME 🌸

repeatmasker-recon — finds repeat families from biological sequences 🧬💖

🎀 SYNOPSIS 🎀

repeatmasker-recon seq_name_list_file MSP_file integer

like, that's the whole vibe. three little args and she's off 🦋

✨ DESCRIPTION ✨

okay so the RECON package implements a de novo algorithm for the identification of repeat families from biological sequences. no cap. 🔥

so the program implements an approach for the de novo identification and classification of repeat sequence families, and the way it does that is by extending the usual approach of single linkage clustering of local pairwise alignments between genomic sequences. that's the base, that's the starting point, we love her 💅

the extensions use multiple alignment information to do two iconic things:

• define the boundaries of individual copies of the repeats 👑
• distinguish homologous but distinct repeat element families 🌈

and when tested on the human genome?? this approach was able to properly identify and group known transposable elements. she ATE. 😭✨

so basically the program should be useful for first-pass automatic classification of repeats in newly sequenced genomes 🧚💜

🫶 SEE ALSO 🫶

• zless /usr/share/doc/repeatmasker-recon/00README.gz

(go read the readme, bestie, it's right there 💖)

💜 AUTHOR 💜

this manpage was written by Andreas Tille for the Debian distribution, and can be used for any other usage of the program 🎀

and that's the whole page!! stay slay, stay clustered, stay de novo 💅✨

signing off from version repeatmasker-recon 1.08 dated April 2016 — yes she's vintage and yes she still serves 🎀🦋💖