README.md

Curation metadata

Summary statistics used during our sequence QC process are available within each sample set subdirectory, in a file named "sequence_qc_stats.csv". Each file contains the following fields:

• sample_id (string) - MalariaGEN sample identifier
• mean_cov (float) - mean coverage
• median_cov (int) - median coverage
• modal_cov (int) - modal coverage
• mean_cov_{contig} (float) - mean coverage for a particular contig
• median_cov_{contig} (int) - median coverage for a particular contig
• mode_cov_{contig} (int) - modal coverage for a particular contig
• frac_gen_cov (float) - fraction of the genome covered
• divergence (float) - divergence

For further information or queries contact support@malariagen.net.