Hi all, I am not clear about differences between de novo assembly and genome resequencing.
I know that if there is no reference genome of the species I am interested in, I need to do de novo assembly to assemble and annotate the species. And if it is already assembled and annotated, I just need to do genome resequencing to analyse the structure variation (or even genes' sequence difference?)
This is a point of the view of their aims. But what about feasibility? I couldn't tell the difference during the reads generation. Though there are BAC clone, etc. to evaluate data during de novo assembly.) I saw that one published de novo genome was assembled with about 300Gb reads of 100 bp x 2 (it's published in 2017, so not old at all. the sequencing depth is about 100x). If one "resequenced" genome derived from 1Tb reads of 100 bp x 2 (good base quality), can I reuse its data to do de novo assembly instead? For example, Burmese Cat and Ragdoll are both cats but they are different cats. Now the genome already de novo -ed and being a reference is of Burmese Cat (from 300Gb reads), "the resequenced genome" is of Ragdoll (from 1Tb reads). Am I able to de novo and annotate the Ragdoll's genome so that other Ragdolls can have a better reference?
Tell me it's absurd if I make any factual errors. Thank you.