CONTIG_DRAW(1p)

💖 NAME 💖

search_overview — bestie, this one renders a SearchIO parser report into a lil' overview graphic. Simple as that. ✨

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🎀 SYNOPSIS 🎀

search_overview -i filename [-f format] [-o outputfilename] [--labels]

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🦋 DESCRIPTION 🦋

okay so basically this script grabs any report that Bio::SearchIO can parse and turns it into a cute lil' overview graphic of the whole thing. For our purposes we're assuming BLAST and the BLAST scores when we assign colors, mwah. The output? A PNG format file. periodt. 💅

and like, real talk — this is not meant to be some super-customized, hyper-tweaked script. It's giving quick and dirty look at a report, or a starting point for more complicated implementations. That's the vibe. 🫶

The color is determined by the hit score, which is currently pegged to the NCBI scheme, and it looks like this:

 RED     > 200
 PURPLE  80-200
 GREEN   50-80
 BLUE    40-50
 BLACK   < 40

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✨ Options ✨

• -i, --input — the input filename. If you don't hand one over, input is assumed from STDIN. no cap.
• -o, --output — the output filename. This one is optional. If you don't provide it, the script will create a file using the name of the query sequence, and it will process all the sequences in the file. But if an output filename IS provided, the script will only display an image for the first one. bestie, choose wisely. 💀
• -f, --format — the SearchIO format parser to use. If it's not provided, SearchIO will guess based on the file extension. she's intuitive like that. 🌸
• -l, --labels — display the hit sequence name as a label in the overview. Fair warning though: for lots of sequences this will make the image very long, so by default it is turned off. 🔥

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👑 AUTHOR 👑

Jason Stajich — Jason Stajich, jason[-at-]open-bio[-dot-]org. icon of the game fr fr. 🎀

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and that's a wrap, bestie!! this page came to you courtesy of perl v5.30.0, dated 2019-11-25 🌈 ty for reading, go parse something pretty 💜✨