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Python_scripts 2017-10-12
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README.txt 2018-02-01 1.3 kB
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galGal4_gene_annotation_model.gtf 2017-10-13 55.7 MB
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galGal4_artificial_chromosome.fasta 2017-10-13 14.0 MB
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galGal4_artificial_chromosome.gtf 2017-10-13 1.8 MB
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Totals: 5 Items   71.5 MB 0 
These Python scripts are usable for a dual transcript-discovery approach that improves the delimitation of gene features from RNA-seq data in the chicken model.
http://bio.biologists.org/content/7/1/bio028498
https://www.ncbi.nlm.nih.gov/pubmed/?term=29183907

Full documentation is provided as supplementary information:
http://bio.biologists.org/content/biolopen/suppl/2018/01/17/bio.028498.DC1/BIO028498supp.pdf

Scripts are compatible with Python 2.7.

Supplementary files:
* galGal4_gene_annotation_model.gtf: Gene annotation model in GTF format associated with the galGal4 version of the chicken genome.
* galGal4_artificial_chromosome.fasta: Artificial chromosome in FASTA format containing the unique contig sequences generated from the de novo transcript discovery. Unique contig sequences are separated to each other by 250 bp.
* galGal4_artificial_chromosome.gtf: Gene annotation model in GTF format associated with the artificial chromosome generated from the de novo transcript discovery.

If you use any of these scripts/files, please cite:
Orgeur M., Martens M., Börno S. T., Timmermann B., Duprez D. and Stricker S. (2018). A dual transcript-discovery approach to improve the delimitation of gene features from RNA-seq data in the chicken model. Biology Open 7(1): bio028498. doi: 10.1242/bio.028498 PMID: 29183907.
Source: README.txt, updated 2018-02-01