PanTools: representation, storage and exploration of pan-genomic data.
S Sheikhizadeh, ME Schranz, M Akdel, D de Ridder, S Smit
Bioinformatics 32(17), i487-i493 (2016)
Efficient inference of homologs in large eukaryotic pan-proteomes.
S Sheikhizadeh, D de Ridder, ME Schranz, S Smit
BMC Bioinformatics (2018)
Pangenomic read mapping
S Sheikhizadeh, D de Ridder, ME Schranz, S Smit
Preprint on BioRxiv
Data sets
- README
- Experiment 1 (228M)
- Experiment 2 (3.4G)
- Experiment 3 (5.0G)
- Experiment 4 (39G)
- Experiment 5 (75G)
- CAMI experiment (13G)
A pangenomic view on the genus Pectobacterium with a focus on P. brasiliense
Jonkheer et al.
Submitted to BMC Genomics
Data and Code
- Input data (197 genomes and annotations) (330 Mb)
- PanTools v3 pre-release (598 Mb)
Instructions for installation and proper use can be found in the Manual.
Contact:
Sandra Smit: Sandra.Smit[at]wur.nl