Locates genomic and peptide sequences for biological analysis.

Miscellaneous Scripts in Bioinformatics

Python Code for Peptide Sequencing of plasma after Chlorine Exposure

Given files with sequences containing signal peptides and sequences not containing signal peptides, multiple classifiers were tested to see which performs best in the classification of signal peptide sequences.

This is an early stage calculator that uses Python to automate the time-consuming calculation components necessary for solid phase peptide synthesis (SPPS). At its current version (v1), the calculator allows calculation of the molecular weight of a desired peptide sequence, the mass of solid support resin needed for SPPS and the percentage yield

This programs calculates the approximate energy (ATP) required to form a peptide chain

R-script to extract 56 features from a given peptide sequence and handle exceptions in the input file

Predict and match digested peptides sequences, their mass m/z and MS/MS spectra with chemical derivatization or post-translational modification.

A peptide fragment ion calculator made with streamlit

Modifications part of the Peptide modifications cycle

Pmlbeta: a PyMOL extension for building β-amino acid insertions and β-peptide sequences. To cite this software publication: https://www.sciencedirect.com/science/article/pii/S2352711020303678

Visualize alpha-helical peptide sequences in R using helical wheels and wenxiang diagrams. See https://doi.org/10.21105/joss.01008 for more details.

Protein Cleaver is a versatile tool for protein analysis and digestion.

Script developed to transform the amino acid smiles to one letter code for later analysis

Using Python to locate a peptide sequence to a reference protein and PTM site

A de novo peptide sequencing transformer

Visualize alpha-helical peptide sequences in Python using helical wheels and wenxiang diagrams

A spectacularly simple package for working with peptide sequences.

Proteomics Mass Spectrometry Datasets for Machine Learning

Python framework for Deep Learning in Proteomics