KMC_TOOLS-SORT(1)

✨ KMC_TOOLS-SORT(1) ✨

okay so bestie, you found the kmc_tools-sort manual page and I am SO glad you're here 💖 this is the one that sorts your KMC databases, and honestly? it's giving glow-up energy 🌈

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🎀 NAME 🎀

kmc_tools-sort — sort KMC databases. that's it, that's the job, and she does it flawlessly 💅

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🦋 SYNOPSIS 🦋

kmc_tools sort <inputdb> [input_params] <output> [output_params]

like, that's the whole vibe. input db, some optional lil input params, output, some optional lil output params. slay ✨

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💜 DESCRIPTION 💜

so here's the tea 🍵: this command converts a database produced by KMC2.x into the KMC1.x database format. and the KMC1.x format? it contains k-mers in sorted order. yes, sorted. no cap. the k-mers are literally in order and she ate that 👑

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🌸 OPTIONS 🌸

for each input, there are additional parameters 🫶

• -ci<value> — exclude k-mers that occur less than <value> times. too rare? not invited to the party, sorry not sorry 🙈
• -cx<value> — exclude k-mers that occur more of than <value> times. (yes bestie, the original says "more of than" and we respect the original fr fr 💀) too popular? also not invited. bye 💀

for output, there are additional parameters ✨

• -cs<value> — maximal value of a counter. that's the ceiling, the limit, the cap on your counters 🎀

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🍓 EXAMPLE 🍓

kmc_tools sort wy_kmc2 -ci3 -cx1000 wy_kmc1 -cs255

look at her go 😭 iconic. takes wy_kmc2, kicks out anything with fewer than 3 occurrences, kicks out anything with more than 1000 occurrences, writes wy_kmc1, and caps the counters at 255. main character energy, no notes 🔥

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👑 AUTHOR 👑

KMC was originally written by these absolute legends:

• Sebastian Deorowicz (sebastian.deorowicz@polsl.pl)
• Marek Kokot
• Szymon Grabowski
• Agnieszka Debudaj-Grabysz

give them their flowers, they earned them 🌸💐

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🌈 COPYING 🌈

KMC is a free software distributed under the GNU GPL3 licence for academic, research, and commercial use. free software, free to use, we love to see it 💖

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bestie reminder: everything above is exactly what the page says — no invented flags, no made-up defaults, just the facts with a little sparkle ✨

and that's a wrap on KMC_TOOLS-SORT(1) 🎀 mwah, go sort those k-mers, you've got this 🫶💅