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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| Format: | Article |
| Language: | English |
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F1000 Research Ltd
2020-09-01
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| Series: | F1000Research |
| Online Access: | https://f1000research.com/articles/9-304/v2 |
| _version_ | 1811331290188742656 |
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| author | Geo Pertea Mihaela Pertea |
| author_facet | Geo Pertea Mihaela Pertea |
| author_sort | Geo Pertea |
| collection | DOAJ |
| description | 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). |
| first_indexed | 2024-04-13T16:18:30Z |
| format | Article |
| id | doaj.art-c5704743f54b4f948a60f2d907e52d7f |
| institution | Directory Open Access Journal |
| issn | 2046-1402 |
| language | English |
| last_indexed | 2024-04-13T16:18:30Z |
| publishDate | 2020-09-01 |
| publisher | F1000 Research Ltd |
| record_format | Article |
| series | F1000Research |
| spelling | doaj.art-c5704743f54b4f948a60f2d907e52d7f2022-12-22T02:40:00ZengF1000 Research LtdF1000Research2046-14022020-09-01910.12688/f1000research.23297.226865GFF Utilities: GffRead and GffCompare [version 2; peer review: 3 approved]Geo Pertea0Mihaela Pertea1Department of Biomedical Engineering, Johns Hopkins University, Baltimore, MD, 21218, USACenter for Computational Biology, Johns Hopkins University, Baltimore, MD, 21218, USASummary: 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).https://f1000research.com/articles/9-304/v2 |
| spellingShingle | Geo Pertea Mihaela Pertea GFF Utilities: GffRead and GffCompare [version 2; peer review: 3 approved] F1000Research |
| title | GFF Utilities: GffRead and GffCompare [version 2; peer review: 3 approved] |
| title_full | GFF Utilities: GffRead and GffCompare [version 2; peer review: 3 approved] |
| title_fullStr | GFF Utilities: GffRead and GffCompare [version 2; peer review: 3 approved] |
| title_full_unstemmed | GFF Utilities: GffRead and GffCompare [version 2; peer review: 3 approved] |
| title_short | GFF Utilities: GffRead and GffCompare [version 2; peer review: 3 approved] |
| title_sort | gff utilities gffread and gffcompare version 2 peer review 3 approved |
| url | https://f1000research.com/articles/9-304/v2 |
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