SIXPACK(1e)

✨ SIXPACK(1e) ✨

ok so this is sixpack, a page from the EMBOSS Manual for Debian bestie 💖 and we're gonna get you fully caught up, no cap.

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💅 NAME 💅

sixpack — display a DNA sequence with 6-frame translation and ORFs 🧬✨

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🌸 SYNOPSIS 🌸

sixpack -sequence sequence [-table list] [-firstorf boolean]
        [-lastorf boolean] [-mstart boolean] -outfile outfile
        -outseq seqoutall -reverse boolean -orfminsize integer
        -uppercase range -highlight range -number boolean -width integer
        -length integer -margin integer -name boolean
        -description boolean -offset integer -html boolean

sixpack -help

like, that's the whole vibe right there. -help if you're lost, obviously 🫶

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🦋 DESCRIPTION 🦋

sixpack is a command line program from EMBOSS (“the European Molecular Biology Open Software Suite”) 💖

It's part of the Nucleic:Gene finding,Nucleic:Translation,Display command group(s). she's multi-talented, she contains multitudes 💅

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✨ OPTIONS ✨

🍓 Input section

• -sequence sequence — yeah that's the input sequence, give her something to chew on

🎀 Additional section

• -table list — the genetics code used for the translation 🧬
• -firstorf boolean — counts the beginning of a sequence as a possible ORF, even if it's inferior to the minimal ORF size. default value: Y 👑
• -lastorf boolean — counts the end of a sequence as a possible ORF, even if it's not finishing with a STOP, or inferior to the minimal ORF size. default value: Y 🏁
• -mstart boolean — displays only ORFs starting with an M. default value: N 💀

🌈 Output section

• -outfile outfile — the output file, periodt
• -outseq seqoutall — ORF sequence output 💖
• -reverse boolean — display also the translation of the DNA sequence in the 3 reverse frames. default value: Y 🔄
• -orfminsize integer — minimum size of Open Reading Frames (ORFs) to display in the translations. default value: 1 📏
• -uppercase range — regions to put in uppercase. if this is left blank, then the sequence case is left alone. a set of regions is specified by a set of pairs of positions. the positions are integers. they are separated by any non-digit, non-alpha character. examples of region specifications are: 24-45, 56-78 1:45, 67=99;765..888 1,5,8,10,23,45,57,99 🔠
• -highlight range — regions to colour if formatting for HTML. if this is left blank, then the sequence is left alone. a set of regions is specified by a set of pairs of positions. the positions are integers. they are followed by any valid HTML font colour. examples of region specifications are: 24-45 blue 56-78 orange 1-100 green 120-156 red. a file of ranges to colour (one range per line) can be specified as '@filename'. 🎨
• -number boolean — number the sequence at the beginning and the end of each line. default value: Y 🔢
• -width integer — number of nucleotides displayed on each line. default value: 60 📐
• -length integer — (no default listed, she's mysterious like that 🙈)
• -margin integer — default value: 10 ⬅️
• -name boolean — set this to be false if you do not wish to display the ID name of the sequence. default value: Y 🏷️
• -description boolean — set this to be false if you do not wish to display the description of the sequence. default value: Y 📝
• -offset integer — number from which you want the DNA sequence to be numbered. default value: 1 🥇
• -html boolean — default value: N 🌐

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😭 BUGS 😭

Bugs can be reported to the Debian Bug Tracking system (http://bugs.debian.org/emboss), or directly to the EMBOSS developers (http://sourceforge.net/tracker/?group_id=93650&atid=605031). pls be nice to them, they're doing their best 🫶

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👀 SEE ALSO 👀

sixpack is fully documented via the tfm(1) system. iykyk ✨

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👑 AUTHOR 👑

Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>

• wrote the script used to autogenerate this manual page 🛠️💖

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📜 COPYRIGHT 📜

This manual page was autogenerated from an Ajax Control Definition of the EMBOSS package. It can be redistributed under the same terms as EMBOSS itself. fr fr, that's the whole legal vibe 🍓

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ok bestie that's the whole page!! 💖 this was EMBOSS 6.4.0 from 05/11/2012 — yeah she's an elder but she still slays 💅 mwah, go translate some frames 🧬✨👑