What you will learn?
Day-1
Day-2
Day-3
Day-1
- Introduction to NGS Technology
- Overview of NGS data formats
- Accessing NGS data using SRA tool kit
- Quality control (FastQC) of reads
Day-2
- Processing of raw reads, adapter clipping, quality trimming
- Read mapping (BWA, BWA-MEM,HISAT2) to reference sequence
- Mapping output (SAM/BAM format)
- Visualization and evaluation of mapping quality
- Read count generation, Differential gene expression analysis
Day-3
- Bacterial whole genome assembly using SPADES
- Assessment of genome assembly using BUSCO, QUAST
- Genome Annotation
- Functional annotation and enrichment analysis: EGG-NOG mapper
