[wgs-assembler-users] Question about contaminant trimming and referring quality value

[Takashi K. <tak...@gm...>]

Hello, I have two questions.

First question. I now trying to assemble BAC clones. As BAC samples include
BAC vector and some of E. coli genome, assemblers I've ever used refer
vector and E. coli fasta sequences to trim them. However, I could not find
an instruction to do that in celera assembly.
Is it possible to refer some fasta files for trimming in CA? Or if
impossible, could anyone tell me how I trim them in CA?

Second question. I would like to see how good CA works by assembly viewer.
I usually use Consed. I could get an ace file using ca2ace.pl and open it
in Consed. However, Consed told me there is no quality files such as phd
file. Could anyone tell me any solutions making Consed work smooth?

Thank you for your kind helps.

TK