|input file that contains the set of fragments from which reads are sampled|
|output file where genomic positions of sequenced reads are stored to|
|READ_NUMBER||5,000,000||number of reads sequenced|
|READ_LENGTH||36||length of the reads|
|PAIRED_END||false||switch on/off paired-end reads|
During the "Final Library Preparation" step of the Flux Simulator pipeline the cDNA fragments are optionally filtered by gel segregation, and also optionally amplified by a PCR (i.e., polymerase chain reaction).