title: WGS of Plasmodium falciparum: V63
design: PCR-free whole-genome Illumina sequencing. Genomic DNA was sheared to ~150-400 bp fragments using a Covaris S220 ultrasonicator and analysed using an Agilent 2100 Bioanalyzer. For library preparation we used the NEBNext DNA Library Prep Master Mix Set for Illumina (no. E6040S) using specific paired-end TruSeq Illumina adaptors for each sample. We obtained >6 million 150 bp paired reads for each sample using an Illumina MiSeq sequencing system. Sequence reads were mapped to the PlasmodDB P. falciparum 3D7 reference genome version 46 (https://plasmodb.org/common/downloads/release-46/Pfalciparum3D7/) using the Bowtie2 local alignment algorithm.