This repo contains the files used in completing the coursework component of APSB.
Repo Structure:
-
1836811-APSB coursework.pdf - Coursework file in PDF.
-
1836811-APSB coursework.html - Coursework file in HTML.
-
1836811-APSB coursework.ipynb - Coursework file - This has been run in VisualStudio.
-
bertozzi_model.py - Model from BioModels
-
leloup_model.py - Model from BioModels
-
data_model
- The XML model files downloaded from BioModels (26th July 2022).
-
data_networkx
- Two FASTA files used as input to BLASTN.
- Two TSV summerising the data taken from BLASTN and used in producing the networkx graphs.
-
MarkdownCoursework
- Due to errors with converting to PDF, a markdown copy of the coursework has been included
- 16 png images for the graphs produced.
Above is a graph produced using networkx for this coursework. It shows the scaffolds of 9 bees (Bombus sp. and Apis sp. )
BioModels website has crashed and notes added to the IPYNB to alert the user.
-
BioModels website is still down.
-
Removed TSV dumps to local files for end user assessment, due to the size of these files it wasn't possible.
-
BioModels is back up, modifying coursework to reflect it.
-
Added HTML copy of coursework - better than the PDF.