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LB1 HMM Project

All files and related dependencies of the LB1 HMM project will be saved here.

Important directories: ~/projects/hmm_LB1/ /media/sf_shared_linux

To rerun the analysis, do the following:

  1. Obtain the databases as indicated by the method section. Process and parse them with the help of the notebooks within: hmm_bpti/scripts/jupyter_notebooks

  2. Run hmm_bpti/scripts_final/cleaning.sh

Use the 3 database directories as arguments, as indicated by the script.

  1. Follow hmm_bpti/scripts/redundancy.sh

  2. Follow hmm_bpti/scripts/alignment.sh

  3. Follow hmm_bpti/proteins_2/alignment_shortener.sh

Note: The corresponding Uniprot databases are managed outside the Github repository due to their size.

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