amkozlov/raxml-ng: RAxML-NG v0.5.0 BETA

CRITICAL BUGFIX:

• bootstrap support values were consistently underestimated if and only if --all command was used with --bs-trees greater tha 250. Many thanks to Fabricia Nascimento for spotting and reporting this bug!

New features/enhancements:

• --support command: bootstrap mapping aka computing BS support values using an existing set of bootstrap trees from a newick file (similar to -f b option in old RAxML)
• site repeats optimization technique as described in (Kobert et al. 2016). This feature is still experimental and disabled by default; it can be enabled with --site-repeats on switch.
• faster AVX2 kernels for protein data (5%-20% speedup)
• automatically enable per-rate scalers on very large alignments (>2000 taxa) to prevent numerical underflow