Oxford Planarian Bioinformatics Community
Jakke Neiro1 & Nathan Kenny2
Aboobaker lab, University of Oxford, firstname.lastname@example.org
Solana lab, Oxford Brookes University, email@example.com
This site includes code, files and other resources generated by the Oxford Planarian Bioinformatics Community.
Annotation of the Schmidtea mediterranea genome
A new expression-driven annotation of the sexual planarian genome (S. mediterranea) was generated based on total RNA-seq data from this species. The annotation is based on 183 planarian RNA-seq samples (see the sample list), the PlanMine sexual genome annotation (SMESG-high), and the PlanMine sexual genome (SMESG.1).
Notebook for annotation pipline
Download S. mediterranea annotation
Annotation of the Dugesia japonica genome
Similarly to the S. mediterranea annotation, the new expression-driven D. japonica annotation was generated based on 43 RNA-seq samples (see the sample list, the Augustus-derived annotation and the genome assembly at planarian.jp.
Download D. japonica annotation
rds files of analyses presented in ACME paper
These files allow easy uploading to R of the analyses presented in the García-Castro et al. 2020 ACME paper. Download link
- García-Castro et al. 2020.