cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-07-10-final-analysis/RAxML; module load raxml/8.0.26; raxml -f a -s H3-with-other-lineages+CENP-A.muscle.fa -n RAxML-H3-with-other-lineages+CENP-A.muscle -m PROTGAMMALG -T 16 -p 12345 -N 100 -x 12345
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-07-10-final-analysis/RAxML; module load raxml/8.0.26; raxml -f a -s H2A-with-other-lineages.muscle.fa -n RAxML-H2A-with-other-lineages.muscle -m PROTGAMMALG -T 16 -p 12345 -N 100 -x 12345
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-07-10-final-analysis/RAxML; module load raxml/8.0.26; raxml -f a -s H4-with-other-lineages.muscle.fa -n RAxML-H4-with-other-lineages.muscle -m PROTGAMMALG -T 16 -p 12345 -N 100 -x 12345
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-07-10-final-analysis/RAxML; module load raxml/8.0.26; raxml -f a -s H2B-with-other-lineages.muscle.fa -n RAxML-H2B-with-other-lineages.muscle -m PROTGAMMALG -T 16 -p 12345 -N 100 -x 12345
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-07-10-final-analysis/RAxML; module load raxml/8.0.26; raxml -f a -s H3-with-other-lineages+CENP-A.muscle.minCov50.fa -n RAxML-H3-with-other-lineages+CENP-A.muscle.minCov50 -m PROTGAMMALG -T 16 -p 12345 -N 100 -x 12345
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-07-10-final-analysis/RAxML; module load raxml/8.0.26; raxml -f a -s H2A-with-other-lineages.muscle.minCov50.fa -n RAxML-H2A-with-other-lineages.muscle.minCov50 -m PROTGAMMALG -T 16 -p 12345 -N 100 -x 12345
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-07-10-final-analysis/RAxML; module load raxml/8.0.26; raxml -f a -s H4-with-other-lineages.muscle.minCov50.fa -n RAxML-H4-with-other-lineages.muscle.minCov50 -m PROTGAMMALG -T 16 -p 12345 -N 100 -x 12345
cd /N/dc2/projects/marinovg/2014-06-19-MMETSP/2015-07-10-final-analysis/RAxML; module load raxml/8.0.26; raxml -f a -s H2B-with-other-lineages.muscle.minCov50.fa -n RAxML-H2B-with-other-lineages.muscle.minCov50 -m PROTGAMMALG -T 16 -p 12345 -N 100 -x 12345