Description

CISA consists of four phases for contig integration.

Four folders are generated after running CISA.

In the phase 1 (CISA1):

• The representative contigs and their explained contigs are recorded in the file of Explained.txt.
• Information about contig extensions are recorded in the file of Extend_info.

For example,

Head: >Skeleton contig >Extended contig

Tail: >Skeleton contig >Extended contig

• The processed contigs named R1_contigs.fa is placed outside the CISA1 folder.