Closed martin-steinegger closed 7 years ago
It should be possible to change the substitution matrice in MMseqs2.
Currently MMseqs2 only supports matrices that are defined in BlastScoreUtils. We have to fit lambda, k, alpha, beta. Maybe ALP (https://www.ncbi.nlm.nih.gov/CBBresearch/Spouge/html_ncbi/html/bib/alp_lib_v1_93.html) can help.
Included ALP https://github.com/soedinglab/MMseqs2/commit/0c394c83af4ebd3defc6802f3a8a908e38177826
Added the support for matrix exchange https://github.com/soedinglab/MMseqs2/commit/66b713cc24dcacf7adfb2e58d7e8c33b74adaa3c
Expected Behavior
It should be possible to change the substitution matrice in MMseqs2.
Current Behavior
Currently MMseqs2 only supports matrices that are defined in BlastScoreUtils. We have to fit lambda, k, alpha, beta. Maybe ALP (https://www.ncbi.nlm.nih.gov/CBBresearch/Spouge/html_ncbi/html/bib/alp_lib_v1_93.html) can help.