@param mismatch_ratio : maximum allowed ratio between the number of mismatched base pairs and the overlap length. Two reads will not be combined with a given overlap if that overlap results in a mismatched base density higher than this value
@param min_overlap : the minimum required overlap length between two reads to provide a confident overlap
@param max_overlap : maximum overlap length expected in approximately 90% of read pairs
@param avg_reads_length : average read length
@param avg_fragment_length : average fragment length
@param standard_deviation : average fragment standard deviation
@param phred_offset : the smallest ASCII value of the characters used to represent quality values of bases in FASTQ files
@param nb_thread : set the number of worker threads
@param archive_name : name for the output archive
@param read1_files : [list] paths to reads 1
@param read2_files : [list] paths to reads 2
@param mismatch_ratio : [float] maximum allowed ratio between the number of mismatched base pairs and the overlap length. Two reads will not be combined with a given overlap if that overlap results in a mismatched base density higher than this value
@param min_overlap : [int] the minimum required overlap length between two reads to provide a confident overlap
@param max_overlap : [int] maximum overlap length expected in approximately 90% of read pairs
@param avg_reads_length : [int] average read length
@param avg_fragment_length : [int] average fragment length
@param standard_deviation : [int] average fragment standard deviation
@param phred_offset : [int] the smallest ASCII value of the characters used to represent quality values of bases in FASTQ files
@param nb_thread : [int] set the number of worker threads
@param archive_name : [str] name for the output archive