Package: peptoolkit 0.0.2
peptoolkit: A Toolkit for Using Peptide Sequences in Machine Learning
This toolkit is designed for manipulation and analysis of peptides. It provides functionalities to assist researchers in peptide engineering and proteomics. Users can manipulate peptides by adding amino acids at every position, count occurrences of each amino acid at each position, and transform amino acid counts based on probabilities. The package offers functionalities to select the best versus the worst peptides and analyze these peptides, which includes counting specific residues, reducing peptide sequences, extracting features through One Hot Encoding (OHE), and utilizing Quantitative Structure-Activity Relationship (QSAR) properties (based in the package 'Peptides' by Osorio et al. (2015) <doi:10.32614/RJ-2015-001>). This package is intended for both researchers and bioinformatics enthusiasts working on peptide-based projects, especially for their use with machine learning.
Authors:
peptoolkit_0.0.2.tar.gz
peptoolkit_0.0.2.zip(r-4.5)peptoolkit_0.0.2.zip(r-4.4)peptoolkit_0.0.2.zip(r-4.3)
peptoolkit_0.0.2.tgz(r-4.4-any)peptoolkit_0.0.2.tgz(r-4.3-any)
peptoolkit_0.0.2.tar.gz(r-4.5-noble)peptoolkit_0.0.2.tar.gz(r-4.4-noble)
peptoolkit_0.0.2.tgz(r-4.4-emscripten)peptoolkit_0.0.2.tgz(r-4.3-emscripten)
peptoolkit.pdf |peptoolkit.html✨
peptoolkit/json (API)
NEWS
# Install 'peptoolkit' in R: |
install.packages('peptoolkit', repos = c('https://jrcodina.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/jrcodina/peptoolkit/issues
Last updated 1 years agofrom:9908e673b5. Checks:OK: 7. Indexed: yes.
Target | Result | Date |
---|---|---|
Doc / Vignettes | OK | Oct 25 2024 |
R-4.5-win | OK | Oct 25 2024 |
R-4.5-linux | OK | Oct 25 2024 |
R-4.4-win | OK | Oct 25 2024 |
R-4.4-mac | OK | Oct 25 2024 |
R-4.3-win | OK | Oct 25 2024 |
R-4.3-mac | OK | Oct 25 2024 |
Exports:appearance_to_binarycount_aaextract_features_OHEextract_features_QSARfilter_residuesincrementreduce_sequencesselect_best_vs_worst
Dependencies:caretclasscliclockcodetoolscolorspacecpp11data.tablediagramdigestdplyre1071fansifarverforeachfuturefuture.applygenericsggplot2globalsgluegowergtablehardhatipredisobanditeratorsKernSmoothlabelinglatticelavalifecyclelistenvlubridatemagrittrMASSMatrixmgcvModelMetricsmunsellnlmennetnumDerivparallellyPeptidespillarpkgconfigplyrpROCprodlimprogressrproxypurrrR6RColorBrewerRcpprecipesreshape2rlangrpartscalesshapeSQUAREMstringistringrsurvivaltibbletidyrtidyselecttimechangetimeDatetzdbutf8vctrsviridisLitewithr
Readme and manuals
Help Manual
Help page | Topics |
---|---|
Transform Amino Acid Appearance Probability into -1, 0, or 1 | appearance_to_binary |
Count Amino Acids | count_aa |
Extract One-Hot Encoded (OHE) Features from Peptide Sequences | extract_features_OHE |
Extract QSAR Features from Peptide Sequences | extract_features_QSAR |
Filter Peptides by Residue Counts | filter_residues |
Increment Peptide Sequences | increment |
Reduce Peptide Sequences by One Residue | reduce_sequences |
Select Best vs Worst Peptides | select_best_vs_worst |