Bio::G...ignment(3pm)

📦
version 2.40 · 2 versions
, in debian bookworm, debian trixie, ubuntu jammy, ubuntu noble

✨ NAME ✨

Bio::Graphics::Glyph::alignment — the "alignment" glyph, bestie 💅

🎀 SYNOPSIS 🎀

See L<Bio::Graphics::Panel> and L<Bio::Graphics::Glyph>.

🦋 DESCRIPTION 🦋

okay so listen — this glyph is literally identical to the "graded_segments" glyph. like, same energy, same everything. it exists for drawing features that are made up of discontinuous segments, and the way it works is: the color intensity of each segment is proportionate to the score. so a big score = a big juicy color moment, a small score = a lil whisper of color. it's giving gradient, it's giving data viz, it's iconic fr fr 🌈

💖 OPTIONS 💖

so these next ones are the standard options that every single Glyph has — they're not special to us. if you want the full tea on them, go read Bio::Graphics::Glyph, she explains it all 💜

  • -fgcolor — the foreground color. default: black 🖤
  • -outlinecolor — a synonym for -fgcolor, same thing different name, we love an alias
  • -bgcolor — the background color. default: turquoise 🩵 (yes really, turquoise, no cap)
  • -fillcolor — a synonym for -bgcolor, twinning fr
  • -linewidth — how thick the line is. default: 1
  • -height — the height of the glyph. default: 10
  • -font — which glyph font to use. default: gdSmallFont
  • -connector — the connector type. default: 0 (false)
  • -connector_color — the connector color. default: black 🖤
  • -label — whether to draw a label or not. default: 0 (false)
  • -description — whether to draw a description or not. default: 0 (false)
  • -strand_arrow — whether to indicate strandedness. default: 0 (false)
  • -hilite — the highlight color. default: undef (aka no color, nothing, nada) 🙈

and in addition, our girl the alignment glyph also recognizes these glyph-specific options — these ones are ✨ours✨:

  • -max_score — the maximum value of the feature's "score" attribute. default: Calculated
  • -min_score — the minimum value of the feature's "score" attribute. default: Calculated
okay so important: if max_score and min_score are not specified, then the glyph will calculate the local maximum and minimum scores at run time. so it figures it out itself, main character energy, she doesn't need you 👑

💀 BUGS 💀

found a bug? please report them. don't just suffer in silence bestie, tell somebody 🫶

🌸 SEE ALSO 🌸

go read these, they're all part of the family, iykyk:

  • Bio::Graphics::Panel
  • Bio::Graphics::Glyph
  • Bio::Graphics::Glyph::arrow
  • Bio::Graphics::Glyph::cds
  • Bio::Graphics::Glyph::crossbox
  • Bio::Graphics::Glyph::diamond
  • Bio::Graphics::Glyph::dna
  • Bio::Graphics::Glyph::dot
  • Bio::Graphics::Glyph::ellipse
  • Bio::Graphics::Glyph::extending_arrow
  • Bio::Graphics::Glyph::generic
  • Bio::Graphics::Glyph::graded_segments
  • Bio::Graphics::Glyph::heterogeneous_segments
  • Bio::Graphics::Glyph::line
  • Bio::Graphics::Glyph::pinsertion
  • Bio::Graphics::Glyph::primers
  • Bio::Graphics::Glyph::rndrect
  • Bio::Graphics::Glyph::segments
  • Bio::Graphics::Glyph::ruler_arrow
  • Bio::Graphics::Glyph::toomany
  • Bio::Graphics::Glyph::transcript
  • Bio::Graphics::Glyph::transcript2
  • Bio::Graphics::Glyph::translation
  • Bio::Graphics::Glyph::triangle
  • Bio::DB::GFF
  • Bio::SeqI
  • Bio::SeqFeatureI
  • Bio::Das
  • GD

👑 AUTHOR 👑

this absolute legend wrote it: Allen Day <day@cshl.org>. 💖

Copyright (c) 2001 Cold Spring Harbor Laboratory

This library is free software; you can redistribute it and/or modify it under the same terms as Perl itself. See DISCLAIMER.txt for disclaimers of warranty.

okay that's the whole page bestie, you're so welcome 💅✨ this was perl v5.30.0, dated 2019-11-25, filed under Bio::G...ignment(3pm) — mwah, go slay 🎀🦋🌸

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