BFAST solid reads

[newbietonextgen]

i am using the software provided in the bfast script folder to change my solid run files (solid2fastq). The end product are 3 files. One says read1.fastq,read2.fastq and single.fastq. My question is which file do i use to run the bfast (input file).

Thanks \

[nilshomer]

i am using the software provided in the bfast script folder to change my solid run files (solid2fastq). The end product are 3 files. One says read1.fastq,read2.fastq and single.fastq. My question is which file do i use to run the bfast (input file).

Thanks \

It looks like you are using the "bfast+bwa" code, which is designed for paired end reads (bfast for read1, bwa for read2). If you wanted to just use bfast, I would use the non "bfast+bwa" release. Please post questions to [email protected].