https://github.com/applicativesystem/tair-gff-ids-analyzer

ease of access gff files from tair for reading tair ids.
https://github.com/applicativesystem/tair-gff-ids-analyzer

arabidopsis arabidopsis-thalian bioinformatics genome-analysis genome-annotation genome-informatics gff gff-toolkit gff3 tair tair3

Last synced: 7 days ago
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ease of access gff files from tair for reading tair ids.

• Host: GitHub
• URL: https://github.com/applicativesystem/tair-gff-ids-analyzer
• Owner: applicativesystem
• License: mit
• Created: 2024-08-21T18:17:28.000Z (4 months ago)
• Default Branch: main
• Last Pushed: 2024-08-21T19:54:34.000Z (4 months ago)
• Last Synced: 2024-11-10T20:18:18.888Z (about 1 month ago)
• Topics: arabidopsis, arabidopsis-thalian, bioinformatics, genome-analysis, genome-annotation, genome-informatics, gff, gff-toolkit, gff3, tair, tair3
• Language: Python
• Homepage:
• Size: 4.65 MB
• Stars: 0
• Watchers: 1
• Forks: 0
• Open Issues: 0
• Metadata Files:
  • Readme: README.md
  • License: LICENSE

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README

        
# tair-gff-ids

- A set of functions which will provide easy access and cleaned gff from tair and uses a dataframe and datascience approach to get the systematic tair ids and their coordinates from the tair 10 gff version.

- It can be applied to any version of the tair for getting the systematic retrival of the tair ids.

- Download the tair 10 or any other gff3 version and use this to make a clean nested iterators of the genomic coordinates.

- It can be applied to any genomic annotation as long as the gff looks like the tair ones.

- This function is a part of the tairaccession package (pip install tairaccession), however you can use this separately and it is completely usable.

Gaurav Sablok \

University of Potsdam \

Potsdam,Germany