Thoughts on sequencing strategy =============================== Lex Nederbragt (corr) et al. When setting up a strategy for sequencing/assembly these are valuable to know: * the goal of the project, e.g. - gene-mining - presence/absence of genes - long scaffolds for synteny - reference genome-standard (whatever that is) - strain variation/haplotying * genome size * genome complexity, i.e. repeat content and level of heterozygosity * number of chromosomes, extrachromosomal elements * can a pure sample be obtained or will there be contaminating DNA? * how much DNA can be obtained from a single individual/clonal line or will it be necessary to use DNA from a mix of different individuals (read: different genomes)? * is there sequencing data available from the same individual or species? * how close is the most closely related reference genome?