v1.2.1

The following changes were made:

• Updated CLI
  • Assembly parameters were divided into sections
  • Added description for the align command

v1.2.0

The following changes were made:

• Read filtering was added
  • Initial filtering based on read length and mean read quality is followed by filtering based on coverage
• Alignment with minimap2 was integrated
• An option to provide genome size was added
  • This is optional, if no genome size is provided, it will be estimated
• The align command was added
  • This command filters reads and performs all-vs-all alignment

v1.1.0

The following changes were made:

• Now only keeping one unitig per unitig pair
• Added circularizing links to the GFA output
• Added a lines to the GFA output
• Added topology (linear or circular) to the unitig names
• Improved fasta sequence generation by using coverage-clipped reads
• Enabled compatibility with Minipolish

v1.0.0

Ilesta is a de novo genome assembler for long reads. It processes all-vs-all alignments of long-read sequencing data to detect overlaps, construct an overlap graph, and generate assembly unitigs.