Amandine Velt

Hello all, I have an assembled genome of 500Mb of size and PacBio 30x data to improve the scaffolding. After the scaffolding, I would like to do the gap filling step with PBJelly. The problem is that when I use PBJelly with the default settings, it fills very well the Ns (70% of Ns are filled, what I want) but also modifies the sequences of my genome around the N (what I don’t want at all!). I just want, basically, replace the Ns with real bases, without modifying anything else. I tried the option...

Hello all, I have an assembled genome of 500Mb of size and PacBio 30x data to improve the scaffolding. After the scaffolding, I would like to do the gap filling step with PBJelly. The problem is that when I use PBJelly with the default settings, it fills very well the Ns (70% of Ns are filled, what I want) but also modifies the sequences of my genome around the N (what I don’t want at all!). I just want, basically, replace the Ns with real bases, without modifying anything else. I tried the option...