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bioconda-recipes

Conda recipes for the bioconda channel.

carpentries_materials

Repo containing data and teaching materials for carpentries workshops

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.

cazy_webscraper

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

ecami

Simultaneous Classification and Motif Identification(eCAMI)

github-pages-with-jekyll

github-slideshow

A robot powered training repository :robot:

github-upload

kaggle_ml

Repo for storing code and notebooks for competing in kaggle machine-learning and data science competitions.

learning_csharp

Code and notes for learning and practising using C#.

markdown-portfolio

merge-conflicts

ncfp

Program and package that retrieves nucleotide coding sequences from NCBI that correspond to a set of input protein sequences.

pyani

Python module for average nucleotide identity analyses

pyrewton

Python package for the identification of comprehensive CAZyomes of candidate species

reviewing-a-pull-request

rosalind_python_problems

Store of Python files containing solutions to problems from Rosalind

saintbioutils

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

security-on-github

sequencetools

Programs used in the lab for various tasks

si_ce_pl_exploration

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

si_foltanyi_et_al_2023

Bioinformatics work for the paper Foltanyi et al., 2022

si_hobbs_et_al_2023_cazyme_classifier_evaluation

Supplementary Information for the independent benchmarking of CAZyme classifiers dbCAN, eCAMI and Hotpep

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_2023_pecto_dickeya

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

si_hobbs_et_al_2024_pecto

Supplementary information for analyses reported in Hobbs et al. (2023), describing the evolution of the CAZome

si_hobbs_et_al_fungal_cazomes

Supplementary information for the annotation of 634 fungal and oomycete CAZomes using pyrewton

si_holmes_etal_2020

Supplementary information for Holmes et al. (2020)

sipbs-compbio-python-workshop-2022

Materials for the SIPBS CompBio workshop

template_bioinformatics_project

Starting template for UG/PG bioinformatics projects using git