I. Background
CIP has sampled botanical seed of wild potato relatives of various ploidy levels available in genebanks. A large body of genotypic data (GBS) is available and needs to be analyzed to assess within accession genetic variability and diversity within and among species.
II. Objective
These data will be used to modify guidelines on sampling heterogeneous Solanaceous genebank accessions.
III. Deliverables
The consultant will submit to CIP the following deliverables:
· SNP data matrix generated from already existing vcf files
· Estimates of within-accession genetic variability based on the marker data
· Between accession genetic variability based on the marker data
· Generate phylogenetic tree, PCA and other diversity metrics
· Comprehensive report on the results of the analysis
· Generate a report on sampling guidelines for various Solanaceous species based on the GBS data
IV. Time frame
The consultancy is envisioned to be complete within 40 days from its start.
Conditions: Consultancy contract will be for approximately 40 days on a fixed price modality against deliverables.
Applications: Applicants should apply online through our CIP’s Job Opportunities website: https://cipotato.org/open-vacancies/ including a letter of motivation, a full C.V. with the names and contact information of three references that are knowledgeable of the candidate’s professional qualifications and work experience. Screening of applications will begin on May 18, 2020 and will continue until the post is filled. All applications will be acknowledged; only short-listed candidates will be contacted.
Requirements
V. Selection Criteria
· MSc or PhD in Computational biology / bioinformatics with at least 2-5 years of experience.
· Basic understanding of population genetics and statistics
· Knowledge of sequence and genotyping data in polyploids along with the analysis thereof
· Experience in data analysis in C, Python and/or R in a Linux environment
· Experience with data visualization tools, such as GGplot, etc
· Excellent written and spoken English communication skills
· Capacity to work independently
How to apply:
Applications: Applicants should apply online through our CIP’s Job Opportunities website: https://cipotato.org/open-vacancies/ including a letter of motivation, a full C.V. with the names and contact information of three references that are knowledgeable of the candidate’s professional qualifications and work experience. Screening of applications will begin on May 18, 2020 and will continue until the post is filled. All applications will be acknowledged; only short-listed candidates will be contacted.