Right now, all reads are treated as single reads.
Some steps could benefit from using paired-end information (contigs assembly with SGA, MATAM scaffolding, ...).
So we could still accept the input file the same way, but be more precise about its formatting so we could retrieve paired-end reads and use them later on.
Right now, all reads are treated as single reads. Some steps could benefit from using paired-end information (contigs assembly with SGA, MATAM scaffolding, ...). So we could still accept the input file the same way, but be more precise about its formatting so we could retrieve paired-end reads and use them later on.