X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=testsrc%2Ftestdata%2FMafftPresets.xml;fp=testsrc%2Ftestdata%2FMafftPresets.xml;h=794d20ce61a293aa350e4a6349f5b9824f989585;hb=babb6decd107f2769f1fbcce00afcda16bd07110;hp=0000000000000000000000000000000000000000;hpb=8bb35115758f447219bef40d3e7c1f1ac9ba3ed6;p=proteocache.git diff --git a/testsrc/testdata/MafftPresets.xml b/testsrc/testdata/MafftPresets.xml new file mode 100644 index 0000000..794d20c --- /dev/null +++ b/testsrc/testdata/MafftPresets.xml @@ -0,0 +1,62 @@ + + + compbio.runner.mafft.Mafft + + L-INS-i (Accuracy-oriented) + L-INS-i (probably most accurate; recommended for <200 + sequences; iterative refinement method incorporating local pairwise + alignment information) + + + + + + + G-INS-i (Accuracy-oriented) + G-INS-i (suitable for sequences of similar lengths; + recommended for <200 sequences; iterative refinement method + incorporating global pairwise alignment information) + + + + + + + E-INS-i (Accuracy-oriented) + E-INS-i (suitable for sequences containing large + unalignable regions; recommended for <200 sequences) + + + + + + + + FFT-NS-i (Speed oriented) + FFT-NS-i (iterative refinement method; two cycles only) + + + + + + + FFT-NS-1 (Speed oriented) + FFT-NS-1 (very fast; recommended for >2000 sequences; + progressive method with a rough guide tree) + + + + + + + NW-NS-PartTree-1 (Speed oriented) + NW-NS-PartTree-1 (recommended for ~10,000 to ~50,000 + sequences; progressive method with the PartTree algorithm) + + + + + + + +