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Bio-GFF3-1.7
River stage one • 1 direct dependent • 1 total dependent

Changes for version 1.7 - 2013-10-02

  • Added `max_lookback` method to Parser, allowing applications to set a maximum number of features to be stored in case they might be referenced by features coming later in the file. Can make it possible to parse GFF3 that does not contain enough '###' directives.

Documentation

gff3_from_fasta
make GFF3 from fasta sequences
gff3_insert_sync_directives
efficiently insert sync (###) directives into GFF3, printing to stdout

Modules

Bio::GFF3::LowLevel
fast, low-level functions for parsing and formatting GFF3
Bio::GFF3::LowLevel::Parser
a fast, low-level gff3 parser
Bio::GFF3::LowLevel::Parser::1_0_backcompat
compatibility layer to support Bio::GFF3::LowLevel::Parser 1.0 API
Bio::GFF3::Transform::FromFasta
make gff3 for the sequences in a fasta file
Bio::GFF3::Transform::SyncDirectives
insert sync (###) directives into an existing GFF3 file. WARNING: this module does not really work in the general case, read the DESCRIPTION section below.

Other files