I have checked the fasta files generated with make. contigs command which generated quality fasta file for each sample and a combined report. The report has the fields as below.
Name Length Overlap_Length Overlap_Start Overlap_End MisMatches Num_Ns Expected_Errors.
Out of these which one we need to consider to know which reads are good and which are not.
Kindly let me know the quality parameter to retrieve good quality contigs.