Nav Tome (wip)

For navigating the Tomes of biology: genomes, proteomes etc... Currently supports fasta and genbank files

Create a virtual environment with python 3.7 or newer. Virtualenv/Pip is recommended over Conda as there are some issues with Qt and its dependencies.

To setup, open your preferred terminal and type:

pip install -r src/main/python/requirements.txt

If you're on windows, add this as well:

pip install -r src/main/python/requirementsWindows.txt

Then:

fbs run

Contains:

• a basic web browser to download data from NCBI
• a parser for the various file types to extract sequence data
• basic machine learning algorithms
• distance matrices
• translation tables
• naive backtranslation
• ngrams, trigrams, nucleotide and peptide distribution
• many sequence similarity calculations
  • cosine
  • levenshtein
  • least common sequence/substrings
  • tversky
  • zlib