bio-comparative-genomics-comparative-annotation-projection

Name: bio-comparative-genomics-comparative-annotation-projection
Rating: 5 (1 reviews)
Author: bg-szy

Project gene annotations across genomes using TOGA (Kirilenko 2023 whole-genome-alignment chain-based projection with intactness classification), CESAR 2.0 (Sharma & Hiller 2017 codon-aware exon projection), LiftOff (Shumate & Salzberg 2020 reference-based annotation transfer), Liftover (UCSC), GeMoMa (Keilwagen 2019 evidence-based projection), and Comparative Annotation Toolkit (CAT). Use when tr

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Updated 18 days ago

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Version Compatibility

Reference examples tested with: TOGA 1.1.7+ (hillerlab/TOGA; Kirilenko 2023 Science 380:eabn3107), CESAR 2.0 (Sharma & Hiller 2017 NAR 45:8369), LiftOff 1.6.3+ (Shumate & Salzberg 2021 Bioinformatics 37(12):1639-1643), Comparative Annotation Toolkit (CAT) 2.4+, GeMoMa 1.9+ (Keilwagen 2019 Methods Mol Biol 1962:161), UCSC liftOver 2024+, Cactus 2.9.1+ (for HAL input), HAL toolkit 2.3+, NextFlow 24+ for TOGA pipeline, BUSCO 5.7+ / Compleasm 0.2.7+ for QC, Snakemake 8.0+ f

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