Bio::S...Helper(3pm)

💖 NAME 💖

okay so bestie, welcome to Bio::SeqIO::FTHelper — it's a Helper class for EMBL/Genbank feature tables ✨ that's literally the whole vibe of this page, and the manual name is Bio::S...Helper(3pm) if you were wondering 🫶

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🌸 SYNOPSIS 🌸

Used by Bio::SeqIO::EMBL,Bio::SeqIO::genbank, and Bio::SeqIO::swiss to help process the Feature Table

Used by Bio::SeqIO::EMBL,Bio::SeqIO::genbank, and Bio::SeqIO::swiss to
help process the Feature Table

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🦋 DESCRIPTION 🦋

so basically this class Represents one particular Feature and it carries these fields, no cap 👑

      key - the key of the feature
      loc - the location string of the feature
      <other fields> - other fields

key is the key of the feature, loc is the location string of the feature, and then there's a whole <other fields> situation where other fields are just… other fields 💅 iykyk

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🎀 FEEDBACK 🎀

💌 Mailing Lists

User feedback is an integral part of the evolution of this and other Bioperl modules. Send your comments and suggestions preferably to one of the Bioperl mailing lists. Your participation is much appreciated fr fr 🫶

  bioperl-l@bioperl.org                  - General discussion
  http://bioperl.org/wiki/Mailing_lists  - About the mailing lists

🩹 Support

Please direct usage questions or support issues to the mailing list:

bioperl-l@bioperl.org

rather than to the module maintainer directly. Many experienced and reponsive experts will be able look at the problem and quickly address it. Please include a thorough description of the problem with code and data examples if at all possible 🙏

🐛 Reporting Bugs

Report bugs to the Bioperl bug tracking system to help us keep track the bugs and their resolution. Bug reports can be submitted via the web:

  https://github.com/bioperl/bioperl-live/issues

slay, now the bugs have a home ✨

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👑 AUTHOR - Ewan Birney 👑

Email birney@ebi.ac.uk

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🌈 CONTRIBUTORS 🌈

Jason Stajich jason@bioperl.org

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💜 APPENDIX 💜

The rest of the documentation details each of the object methods. Internal methods are usually preceded with a _ underscore, periodt 💅

✨ _generic_seqfeature ✨

• Title — _generic_seqfeature
• Usage — $fthelper->_generic_seqfeature($annseq, "GenBank")
• Function — processes fthelper into a generic seqfeature
• Returns — TRUE on success and otherwise FALSE
• Args — The Bio::Factory::LocationFactoryI object to use for parsing location strings. The ID (e.g., display_id) of the sequence on which this feature is located, optionally a string indicating the source (GenBank/EMBL/SwissProt)

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✨ from_SeqFeature ✨

• Title — from_SeqFeature
• Usage —

@fthelperlist = Bio::SeqIO::FTHelper::from_SeqFeature($sf,
                                                    $context_annseq);

• Function — constructor of fthelpers from SeqFeatures

and okay so the tea here 🍓 the additional annseq argument is to allow the building of FTHelper lines relevant to particular sequences (ie, when features are spread over enteries, knowing how to build this)

• Returns — an array of FThelpers
• Args — seq features

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✨ key ✨

• Title — key
• Usage — $obj->key($newval)
• Function —
• Example —
• Returns — value of key
• Args — newvalue (optional)

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✨ loc ✨

• Title — loc
• Usage — $obj->loc($newval)
• Function —
• Example —
• Returns — value of loc
• Args — newvalue (optional)

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✨ field ✨

• Title — field
• Usage —
• Function —
• Example —
• Returns —
• Args —

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✨ add_field ✨

• Title — add_field
• Usage —
• Function —
• Example —
• Returns —
• Args —

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and that's the whole page bestie, we ate and left absolutely no crumbs 💖✨🎀

shoutout to perl v5.32.1 and the date 2021-08-15 — that's the version and date this whole thing came from, and yeah, the manual name is Bio::S...Helper(3pm), go forth and process those feature tables 🌸🦋👑