This relates to the reference genome assembly of the humble guinea pig (Cavia porcellus) undertaken by the human genomics group at ESR (yes the irony I know). Building a better reference genome assembly for the wee guinea pig is an attempt to improve the genetic analyses in studies on premature birth using the guinea pig as a model organism. Oxford Nanopore Technologies (ONT) pore-c data.
- The raw data for this project is stored/backed up at
/mnt/cavia_porcellus/genome_sequencing/guinea_pore_c/on ESR's research network (Leviathan)
- This analysis was for the most part carried out at
/NGS/scratch/KSCBIOM/HumanGenomics/guinea_pore_c/on ESR's production network - A minimal version of the analyses were stored/backed up at
/NGS/clinicalgenomics/archive/2022/results/guinea_pore_c/on ESR's production network
- 01 - Assumptions
- 02 - Basecallling
- 03 - Initial QC
- 04 - Pore-c snakemake pipeline run
- 05 - Look at outputs
- 06 - Data visualisation
- 07 - Cleanup
- The github repository for this project is public
- For other general queries about this project beyond the bioinformatics, contact the current (2022) representatives of the ESR genomics group, Donia Macartney-Coxson ([email protected]) and/or Joep de Ligt ([email protected])
Find the github repository for this project at: https://github.com/leahkemp/guinea_pore_c
Find the rendered webpage of results for this project at: https://leahkemp.github.io/guinea_pore_c