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```sh | ||
agat_sp_add_introns.pl --help | ||
``` | ||
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------------------------------------------------------------------------------ | ||
| Another GFF Analysis Toolkit (AGAT) - Version: v1.4.0 | | ||
| https://github.com/NBISweden/AGAT | | ||
| National Bioinformatics Infrastructure Sweden (NBIS) - www.nbis.se | | ||
------------------------------------------------------------------------------ | ||
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Name: | ||
agat_sp_add_introns.pl | ||
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Description: | ||
The script aims to add intron features to gtf/gff file without intron | ||
features. | ||
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Usage: | ||
agat_sp_add_introns.pl --gff infile --out outFile | ||
agat_sp_add_introns.pl --help | ||
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Options: | ||
--gff, -f, --ref or -reffile | ||
Input GTF/GFF file. | ||
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--out, --output or -o | ||
Output GFF3 file. | ||
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-c or --config | ||
String - Input agat config file. By default AGAT takes as input | ||
agat_config.yaml file from the working directory if any, | ||
otherwise it takes the orignal agat_config.yaml shipped with | ||
AGAT. To get the agat_config.yaml locally type: "agat config | ||
--expose". The --config option gives you the possibility to use | ||
your own AGAT config file (located elsewhere or named | ||
differently). | ||
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--help or -h | ||
Display this helpful text. | ||
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Feedback: | ||
Did you find a bug?: | ||
Do not hesitate to report bugs to help us keep track of the bugs and | ||
their resolution. Please use the GitHub issue tracking system available | ||
at this address: | ||
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https://github.com/NBISweden/AGAT/issues | ||
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Ensure that the bug was not already reported by searching under Issues. | ||
If you're unable to find an (open) issue addressing the problem, open a new one. | ||
Try as much as possible to include in the issue when relevant: | ||
- a clear description, | ||
- as much relevant information as possible, | ||
- the command used, | ||
- a data sample, | ||
- an explanation of the expected behaviour that is not occurring. | ||
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Do you want to contribute?: | ||
You are very welcome, visit this address for the Contributing | ||
guidelines: | ||
https://github.com/NBISweden/AGAT/blob/master/CONTRIBUTING.md |