In this training course you will find theory and practice material for introducing yourself to the basics of high throughput sequencing data analysis.
The material includes slides with theory concepts and a bunch of practical exercises using nextflow and singularity, focusing on the interpretation of results.
- Course Programm Download pdf
- VM Access Open file
- Install software and download dataset First steps
- Talk 1: Secuenciación masiva. Plataformas de secuenciación
- Talk 2: Iniciación al entorno Linux. Aspectos teóricos
- Exercise 1: Comandos básicos de linux. -- Download pdf
- Talk 3: Aplicaciones de las técnicas de secuenciación masiva (NGS)
- Exercise 2: Conda. -- Download pdf
- Exercise 3: Ficheros. -- Download pdf
- Exercise 4: Permisos. -- Download pdf
- Talk 4: Control de calidad y preprocesado
- Talk 5: Mapping y filtrado de duplicados
- Exercise 5: Formato fastq -- Download pdf
- Exercise 6: Control de Calidad y preprocesamiento de ficheros fastq -- Download pdf
- Exercise 7: Mapado y control de calidad -- Download pdf
- Talk 6: Variant Calling
- Exercise 8: Variant Calling -- Download pdf
- Talk 7: Ensamblado, anotación y tipificación
- Exercise 9: Ensamblado, anotación y tipificación -- Download pdf