Phylogenomics analyses for 1KFG project
License: MIT License
Ortholog identification and Tree building
git clone [email protected]:1KFG/Phylogenomics_HMMs.git
ln -s Phylogenomics_HMMs HMM
mkdir search aln
cd pep
ls *.fasta > ../list
cd
This is out of date - to fix soon
# run once for every genome
qsub -d `pwd` -t 1-348 jobs/do_hmmsearch.Roz200.sh
qsub -d `pwd` jobs/make_get_best_hits.Roz200.sh
# make the per-marker files
qsub -d`pwd` jobs/make_unaln.Roz200.sh
# hmmalign each marker file
qsub -d `pwd` -t 1-192 jobs/hmm_align.Roz200.sh
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