User:Herrer01

Juan Manuel Herrero Medrano

Postdoctoral position at Wageningen University, Animal Breeding and Genomics Centre.

Scientific interests:

• Bioinformatics
• Next Generation Sequence data and High-density SNP arrays analysis
• Functional genomics
• Population genomics

Main current projects

• Storage, mapping variants calling analysis on re-sequence data on various livestock species
• Functional aspects of turkey genome variation
• De novo assembly and annotation of genomes

Procedures

• Main sequencing platform is Illumina (We started in 2008 on Solexa GA, to currently Illumina HiSeq).
• Short-read mapping (Mosaik, BWA)
• Variant calling (Samtools, GATK, ANGSD).
• Functional analysis of variants (Annovar, Variant Effect Predictor)
• Various population- and phylogenomic approaches

Main programming languages:

• Linux shell scripting
• Python
• R