Preview

mpc-bioinformatics-ProtGraph-f307d76
- .flake8
  
  66 Bytes
- .github
  - linters
    - .flake8
      
      66 Bytes
    - .isort.cfg
      
      39 Bytes
  - workflows
    - functional_tests.yaml
      
      888 Bytes
    - pypi.yaml
      
      729 Bytes
    - super_linter.yaml
      
      538 Bytes
- .gitignore
  
  2.0 kB
- LICENSE
  
  1.8 kB
- MANIFEST.in
  
  32 Bytes
- README.md
  
  21.0 kB
- examples
  - F1SN05.txt
    
    8.2 kB
  - P49782.txt
    
    9.5 kB
  - Q9QXS1.txt
    
    47.5 kB
  - QXXXXX.txt
    
    7.4 kB
  - e_coli.dat
    
    57.9 MB
  - p53_human.txt
    
    412.7 kB
- materials_and_posters
  - 2021_EuBIC_MS_Seminar.pdf
    
    1.1 MB
  - 2021_HUPO_Poster_as_Slides.pdf
    
    926.6 kB
  - 2021_ISMB_ProtGraph_Poster.pdf
    
    679.9 kB
  - 2021_ISMB_ProtGraph_Poster_Slides.pdf
    
    810.9 kB
  - 2022_EuBIC-MS_Seminar.pdf
    
    1.1 MB
  - 2022_Proteomic_Forum_P197_Poster.pdf
    
    541.1 kB
  - 2023_EuBIC-MS_Developers_Meeting.pdf
    
    760.6 kB
- protgraph
  - __init__.py
    
    80 Bytes
  - __main__.py
    
    35 Bytes
  - aa_masses_annotation.py
    
    7.3 kB
  - aa_replacer.py
    
    3.5 kB
  - annotate_ptms.py
    
    13.6 kB
  - cli.py
    
    33.8 kB
  - digestion.py
    
    7.2 kB
  - export
    - __init__.py
      
      0 Bytes
    - abstract_exporter.py
      
      1.6 kB
    - binary_pcsr.py
      
      2.4 kB
    - cassandra.py
      
      9.4 kB
    - csv.py
      
      1.2 kB
    - dot.py
      
      266 Bytes
    - exporters.py
      
      4.0 kB
    - generic_file_exporter.py
      
      1.3 kB
    - gml.py
      
      290 Bytes
    - graphml.py
      
      286 Bytes
    - gremlin.py
      
      3.4 kB
    - large_binary_pcsr.py
      
      963 Bytes
    - large_csv.py
      
      2.6 kB
    - large_pcsr.py
      
      853 Bytes
    - mysql.py
      
      7.5 kB
    - pcsr.py
      
      9.9 kB
    - peptides
      - __init__.py
        
        0 Bytes
      - abstract_peptide_exporter.py
        
        6.2 kB
      - pep_citus.py
        
        7.3 kB
      - pep_fasta.py
        
        7.2 kB
      - pep_mysql.py
        
        11.6 kB
      - pep_postgres.py
        
        12.7 kB
      - pep_sqlite.py
        
        8.0 kB
      - pep_trie.py
        
        2.0 kB
    - pickle.py
      
      282 Bytes
    - postgres.py
      
      7.6 kB
    - redisgraph.py
      
      3.7 kB
  - ft_execution
    - __init__.py
      
      587 Bytes
    - generic.py
      
      9.9 kB
    - generic_cleaved_peptide.py
      
      4.1 kB
    - init_met.py
      
      4.3 kB
    - signal.py
      
      3.5 kB
    - var_seq.py
      
      8.7 kB
  - graph_collapse_edges.py
    
    6.1 kB
  - graph_generator.py
    
    8.4 kB
  - graph_statistics.py
    
    7.0 kB
  - merge_aminoacids.py
    
    12.6 kB
  - protgraph.py
    
    11.9 kB
  - read_embl.py
    
    1.4 kB
  - scripts
    - __init__.py
      
      0 Bytes
    - compact_fasta.py
      
      2.4 kB
    - convert_fasta_to_sp_embl_txt.py
      
      8.8 kB
    - generate_fasta_decoys.py
      
      4.9 kB
    - pepsqlite_to_fasta.py
      
      3.3 kB
    - print_sums.py
      
      4.0 kB
    - replace_fasta_header.py
      
      3.4 kB
  - unexpected_exception.py
    
    814 Bytes
  - verify_graphs.py
    
    2.2 kB
- requirements.txt
  
  86 Bytes
- resources
  - example_graph.png
    
    97.2 kB
- setup.py
  
  1.9 kB
- tests
  - functional_test.py
    
    8.0 kB
- utilities
  - README.md
    
    118 Bytes
  - citus_set_db_and_bit.sh
    
    3.4 kB
  - execute_combinations.py
    
    1.5 kB
  - generate_exclude_csvs_by_paths.py
    
    3.1 kB
  - generate_fasta_from_peppg_pickle_export.py
    
    10.1 kB
  - generate_fasta_from_trie.py
    
    1.8 kB

mpc-bioinformatics/ProtGraph-0.3.9.zip