Closed jasper1918 closed 7 years ago
Program now takes an indexed fasta to extract sequences around the breakpoint and passes this to primer design. Leaving this open now, as I may make this optional...
Code only uses the fasta now to design primers and will not use the assembly going forward. Closed
Currently primer design takes the assembled contig and tries to make primers on each half. Rather, it should ensure that each primer comes from a side of the junction. Either assemble each side separately and join or pull sequence from indexed fasta for the coordinates.