Name: Jose Antonio Montero Tena
Type: User
Company: Institute of Plant Breeding, Justus Liebig University, @agolicz Lab
Bio: PhD student working in the field of plant genomics and bioinformatics
Location: Giessen, Germany
Blog: www.linkedin.com/in/joseantoniomonterotena
Jose Antonio Montero Tena's Projects
Feedback and suggestions for improvement of the method to assign haploblocks from mummer alignments described in the paper 'A haplotype-led approach to increase the precision of wheat breeding'
This repository contains the files from my master thesis project required to conduct a whole-genome analysis of haploblocks in wheat based on pairwise comparisons between assemblies. This is based on a previous method (https://doi.org/10.1038/s42003-020-01413-2), but focuses on the the quality of the pairwise comparisons to call haplotypes.
Extract families within PED files by providing the name of the file and the individual ID for which the rows corresponding to its ancestors will be extracted
The bash script reformats SHAPEIT .haps file to show samples by rows instead of variants by rows