Tools/_toc.yml at main · CompBiochBiophLab/Tools · GitHub

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# Table of contents
# just for jupyter notebooks. Other files are not shown here, althrough we will investigate if HTML files can be generated as well from RScript and included here
# Learn more at https://jupyterbook.org/customize/toc.html

format: jb-book
root: intro
chapters:
- file: README.md
- file: MDTools/Readme.md
  sections:
    - file: MDTools/MDAnalysis_traj_ex1.ipynb
    - file: MDTools/MDAnalysis_traj_ex2.ipynb
    - file: MDTools/InstallingopenMM
- file: genomeTools/Readme.md
  sections:
    - file: genomeTools/parsinggnomAD.ipynb
    - file: genomeTools/RetrieveSequence.ipynb
    - file: genomeTools/apiUniprot.ipynb
    - file: genomeTools/traduirSeqDNAaProt.ipynb
- file: sequenceTools/Readme.md
  sections:
    - file: sequenceTools/ternary_hamming.ipynb
    - file: sequenceTools/ternary_levenshtein.ipynb
    - file: sequenceTools/trilateration_hamming.ipynb
    - file: sequenceTools/mds_levenshtein.ipynb
    - file: sequenceTools/kmer_pca.ipynb
- file: chemoinformaticsTools/Readme.md
  sections:
    - file: chemoinformaticsTools/smilesRDKIT.ipynb
    - file: chemoinformaticsTools/IdentifyFG.ipynb
    - file: chemoinformaticsTools/chembl.ipynb
- file: pythonPrimer/Readme.md
  sections:
    - file: pythonPrimer/Operators.ipynb
    - file: pythonPrimer/moduleExample.ipynb
    - file: pythonPrimer/BasicPythonIntro.ipynb
    - file: pythonPrimer/extractIntAct.ipynb
    - file: pythonPrimer/DuplicatedFiles.ipynb
    - file: pythonPrimer/Remove empty directories.ipynb
    - file: pythonPrimer/Simple_matplotlib.ipynb
- file: QMTools/Readme.md
  sections:
    - file: QMTools/GAMESSparsing.ipynb
- file: productivityTools/Readme.md
  sections:
    - file: productivityTools/gantt.ipynb
- file: RNATools/Readme.md
  sections:
    - file: RNATools/ENSMBLE2GENENAME.ipynb
    - file: RNATools/DifferentialExpressionExample.ipynb
    - file: RNATools/SimpleAnalysisGEO.ipynb
- file: PDBTools/Readme.md
  sections:
    - file: PDBTools/ChimeraAttempt.ipynb
    - file: PDBTools/IntroPymol.ipynb
    - file: PDBTools/frame_observer.ipynb
- file: mathTools/Readme.md
  sections:
    - file: mathTools/Functions_plots.ipynb
    - file: mathTools/PlotVectors.ipynb
- file: statsTools/Readme.md
  sections:
    - file: statsTools/distributions.ipynb
- file: teachingTools/Readme.md
  sections:
    - file: teachingTools/Individualized_tests_from_Moodle_csv.ipynb
- file: MLTools/Readme.md
  sections:
    - file: MLTools/PCA_PLS.ipynb
- file: miscellanea/README.md
  sections:
    - file: miscellanea/GitHubTricks.md