Maximum Overlap assembly method for Illumina data

NextGENe Online Help : Sequence Assembly Tool : Sequence Assembly Tool Settings : Maximum Overlap assembly method for Illumina data

The Maximum Overlap assembly method is an alternative method of assembly for Illumina data that is less memory intensive than the De Bruijn assembly method. In this assembly method, which is suitable after multiple cycles of condensation, redundant/overlapping reads are merged to elongate condensed reads to form long contigs.

Setting	Description
Minimum Read Length = [ ] Bases	Sequence reads that contain less than this number of bases are not used to generate the final assembly.
Read Count Required for Indexing >= [x] and <= [y]	The number of reads that contain a given anchor sequence must fall within this range for the sequence to be used for indexing.
Minimum Length = 1/2 Avg Original Read Length	With this option selected, the shortest contig that is produced is one half the length of the average original read length. For example, if the average length of the original reads is 36 bases, then the shortest contig that is produced is 18 bases.
Minimum Contig Length = [ ] bases	After assembly, contigs that contain less than this number of bases are excluded from the Assembled Sequences output file.