Dataset
Code: Genetic basis of sex determination in a parasitoid wasp species
Matthey-Doret, C. (Creator), Kooi, van der, C. (Creator), Jeffries, D. L. (Creator), Bast, J. (Creator), Dennis, A. B. (Creator), Vorburger, C. (Creator) & Schwander, T. (Creator), University of Groningen, 7-Nov-2019
DOI: https://doi.org/https://github.com/cmdoret/CSD_lfabarum
Dataset
- Cyril Matthey-doret (Creator)
- Casper Kooi, van der (Creator)
- Daniel L. Jeffries (Creator)
- Jens Bast (Creator)
- Alice, B. Dennis (Creator)
- Christoph Vorburger (Creator)
- Tanja Schwander (Creator)
Description
This pipeline is part of the publication: Matthey-Doret et al., 2019, Genome Biology and evolution, doi: 10.1093/gbe/evz219
In this project, we use restriction-site associated DNA-sequencing (RAD-seq) and build a custom pipeline with the aim to locate and identify the complementary sex determination (CSD) locus/loci in the parasitoid wasp species Lysiphlebus fabarum. This repository contains a pipeline to map the reads using BWA and build loci using the different components of STACKS with optimal parameters and perform downstream analyses. It was designed to run on a distributed High Performance Computing (HPC) environment with LSF but can also be ran on a personal machine.
In this project, we use restriction-site associated DNA-sequencing (RAD-seq) and build a custom pipeline with the aim to locate and identify the complementary sex determination (CSD) locus/loci in the parasitoid wasp species Lysiphlebus fabarum. This repository contains a pipeline to map the reads using BWA and build loci using the different components of STACKS with optimal parameters and perform downstream analyses. It was designed to run on a distributed High Performance Computing (HPC) environment with LSF but can also be ran on a personal machine.
| Date made available | 7-Nov-2019 |
|---|---|
| Publisher | University of Groningen |
| Access to the dataset | |
|---|---|
| Contact | researchdata@rug.nl |
Related Publications
Mapping of multiple complementary sex determination loci in a parasitoid wasp
Matthey-Doret, C., van der Kooi, C. J., Jeffries, D. L., Bast, J., Dennis, A. B., Vorburger, C. & Schwander, T., Oct-2019, In : Genome Biology and Evolution. 11, 10, p. 2954-2962 9 p.Research output: Contribution to journal › Article › Academic › peer-review
Related Datasets
Dataset: Mapping of multiple complementary sex determination loci in a parasitoid wasp
Matthey-Doret, C. (Creator), Kooi, van der, C. (Creator), Jeffries, D. L. (Creator), Bast, J. (Creator), Dennis, A. B. (Creator), Vorburger, C. (Creator) & Schwander, T. (Creator), University of Groningen, 15-Nov-2018
DOI: https://doi.org/10.5281/zenodo.1488603
Dataset
ID: 129204452