Genome quality & annotation tools
How many short reads mapped to a genome sequence?
How deep do we have to sequence?
Normalization for comparing gene coverage values
Measure for base quality
Sequence length in numbers of base pairs
Guanine-cytosine (GC) content of a genome sequence
Full genome shotgun sequencing
→ Read quality control and trimming
remove low-quality reads and adapter sequences
bowtie2 alignment