Hi there! 👋
This is the GitHub home of the sipbs-compbiol SIPBS Computational Biology group. We conduct research and teaching in bioinformatics and computational biology at the University of Strathclyde.
Areas of Interest
- Microbiology and microbial genomics (taxonomy and classification, host-microbe interactions, functional annotation, etc.)
- Industrial biotechnology (protein engineering, improving industrial strains, etc.)
- Biostatistics and modelling (metabolic modelling, experimental design, etc.)
If you'd like to know more, please visit our group pages
This GitHub organisation hosts software and teaching material written by group members. We have some convenient shortcuts below.
| Name | Summary | Publication | Repository | Webpage |
|---|---|---|---|---|
cazy_webscraper |
make a local, extensible, version of CAZy | doi:10.1099/mgen.0.001086 | HobnobMancer/cazy_webscraper | webpage |
ncfp |
download coding sequences and backthread proteins | n/a | widdowquinn/ncfp | webpage |
pyani |
Average Nucleotide Identity of microbial genomes | doi:10.1039/C5AY02550H | widdowquinn/pyani | webpage |
| Module | Topic | Repository | Webpage |
|---|---|---|---|
| BM211 | Workshop 1: Microbial Ecology | [repo] | [webpage] |
| BM211 | Workshop 5: Phylogenetic Trees | [repo] | [webpage] |
| BM214 | Workshop 2: Sequence Searching | [repo] | [webpage] |
| BM214 | Workshop 3: Data Interpretation | [repo] | [webpage] |
| BM329 | Block A Workshop: Microbial Identification | [repo] | [webpage] |
| BM329 | Block B Workshop: Diseases of the Respiratory Tract | [repo] | [webpage] |
| BM432 | Data Visualisation Workshop | [repo] | [webpage] |
| BM425 | Microbial Genomics Workshop |
| Publication | Title | Repository | Webpage |
|---|---|---|---|
| Kiepas et al. (2024) [submitted] | 16S rRNA phylogeny and clustering is not a reliable proxy for genome-based taxonomy in Streptomyces | [repo] | [webpage] |
| Topic | Repository | Webpage |
|---|---|---|
| BM432 UG Final Year Project Guidance | [repo] | [webpage] |
| BM432 UG Final Year Project GitHub Template | [repo] | [webpage] |
| BM954 MSc Project Guidance | [repo] | [webpage] |
| PDA Student Guidance | [repo] | [webpage] |
| SIPBS Internships | [repo] | [webpage] |
| Module | Topic | Repository | Webpage |
|---|---|---|---|
| BM432 | UG Final Year Project Workshops | [repo] | [webpage] |
| BM425 | Carpentries for UG Projects | [repo] | [webpage] |
| MP429 | Introduction to Statistics | [repo] | [webpage] |
| CPD | Carpentries for IBioIC 2021-05-04 | [repo] | [webpage] |
| CPD | Carpentries for IBioIC 2021-05-11 | [repo] | [webpage] |