title: MiSeq-amplicons of P. falciparum isolates
design: Malaria positive samples were amplified using  gene-specific and indexing primers targeting 2 polymorphic regions of P.  falciparum genes coding for the circumsporozoite protein (pfcsp), and apical  membrane antigen 1 (pfama1). The sequencing quality and performance were  assessed using gDNA extracted from P. falciparum strains (3D7, 7G8, Dd2 and  HB3) mixed at different concentrations as well as 40 P. falciparum isolates  with the complexity of infection (COI) determined on the basis of the length  of pfmsp1 and pfmsp2 amplicon sizes. Pooled libraries of the above amplicons  were sequenced in an Illumina MiSeq instrument using paired end 2300bp reads  and a MiSeq v3 (600 cycles) flow cell.