HobnobMancer/saintBioutils

Stars
1
Language
Python
License
MIT License
Created almost 3 years ago
Updated over 1 year ago

HobnobMancer/saintBioutils

HobnobMancer

There are no reviews yet. Be the first to send feedback to the community and the maintainers!

Repository of utility and miscellaneous functions for using in bioinformatics pipelines, primarily in Python

cazy_webscraper

Web scraper to retrieve protein data catalogued by the CAZy, UniProt, NCBI, GTDB and PDB websites/databases.

cazomevolve

`cazomevolve` ('cazome-evolve') investigates the evolution of CAZomes, and identifies CAZy families that co-occur within the genomes of candidate species, more frequently than would be expected by lineage.

Jupyter Notebook

pyrewton

Python package for the identification of comprehensive CAZyomes of candidate species

SI_Foltanyi_et_al_2023

Bioinformatics work for the paper Foltanyi et al., 2022

SI_Hobbs_et_al_2023_Pecto_Dickeya

Supplementary information on the exploration of the CAZome and carbohydrate processing enzyme activities in soft rot Pectobacteriaceae

Jupyter Notebook

SI_CE_PL_exploration

Explore the sequence, structure and function of CAZymes containing a CE and PL9 domain.

sipbs-compbio-python-workshop-2022

Materials for the SIPBS CompBio workshop

Jupyter Notebook

SI_Hobbs_et_al_2023_cazywebscraper

Supplementary information for analyses reported in Hobbs et al. (2023), for presenting the software package `cazy_webscraper`

SI_Hobbs_et_al_2024_Pecto

Supplementary information for analyses reported in Hobbs et al. (2024), describing the evolution of the CAZome