SJ::Splitting and Joining Method v0.1

Hybrid GS + PANJEP tree inference: each clade is resolved by graph splitting (GS) or neighbor-joining (PANJEP) according to its similarity-matrix transitivity.

Paste a FASTA file (protein or nucleotide; alphabet is auto-detected from residue composition). (sample)
Clades with transitivity > T are resolved by NJ (panjep); otherwise by GS spectral clustering. Range (0, 1].
Threads for both the homology search and OpenMP.
1.0 – 7.5. Protein → MMseqs2 -s; nucleotide → blastn -task (<3 megablast, <5 dc-megablast, <7 blastn, ≥7 blastn-short).