GFF Utilities: GffRead and GffCompare [version 2; peer review: 3 approved]

Summary: GTF (Gene Transfer Format) and GFF (General Feature Format) are popular file formats used by bioinformatics programs to represent and exchange information about various genomic features, such as gene and transcript locations and structure. GffRead and GffCompare are open source programs tha...

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Bibliographic Details
Main Authors: Geo Pertea, Mihaela Pertea
Format: Article
Language:English
Published: F1000 Research Ltd 2020-09-01
Series:F1000Research
Online Access:https://f1000research.com/articles/9-304/v2
Description
Summary:Summary: GTF (Gene Transfer Format) and GFF (General Feature Format) are popular file formats used by bioinformatics programs to represent and exchange information about various genomic features, such as gene and transcript locations and structure. GffRead and GffCompare are open source programs that provide extensive and efficient solutions to manipulate files in a GTF or GFF format. While GffRead can convert, sort, filter, transform, or cluster genomic features, GffCompare can be used to compare and merge different gene annotations. Availability and implementation: GFF utilities are implemented in C++ for Linux and OS X and released as open source under an MIT license  (https://github.com/gpertea/gffread, https://github.com/gpertea/gffcompare).
ISSN:2046-1402