Functions§
- determine_
splitters - Build a splitter set from reference contigs
- determine_
splitters_ streaming - Build a splitter set by streaming through a FASTA file (memory-efficient!)
- determine_
splitters_ streaming_ first_ sample - Build a splitter set from ONLY the first sample in a PanSN file
- find_
candidate_ kmers_ multi - Find candidate k-mers from multiple contigs (for reference genome)
- find_
new_ splitters_ for_ contig - Find NEW splitter k-mers for a non-reference contig
- is_
hard_ contig - Check if a contig is “hard” - meaning it has NO splitters from the existing set
- is_
splitter - Check if a k-mer is a splitter
- two_
pass_ splitter_ discovery - Two-pass splitter discovery matching C++ AGC batch mode