Repositories list

• MG_PhosphoMEK2

  Public
  Re-analysis of phosphorylation data, including total proteome (Storey)

  R

  •0•0•0•0•Updated Aug 28, 2025Aug 28, 2025

• MG_BSubComp

  Public
  Transcriptomic changes in ΔcomA and ΔrapA mutants in Bacillus subtilis (Stanley-Wall)

  R

  •0•0•0•0•Updated Aug 19, 2025Aug 19, 2025

• AlmostSignificant

  Public
  A server for maintaining high-throughput sequencing QC data

  Python

  •

  MIT License

  •0•13•0•0•Updated Aug 5, 2025Aug 5, 2025

• dexdash

  Public
  Interactive explorer for differential expression analysis centred on the volcano plot. Features fast functional enrichment.

  R

  •

  Other

  •0•2•0•0•Updated Jul 30, 2025Jul 30, 2025

• slivka-bio-docker

  Public
  Docker Compose configuration for slivka-bio

  Dockerfile

  •

  Apache License 2.0

  •1•3•0•0•Updated Jul 19, 2025Jul 19, 2025

• slivka-bio-installer

  Public
  Python

  •

  Apache License 2.0

  •1•0•0•0•Updated Jul 19, 2025Jul 19, 2025

• LIGYSIS-web

  Public
  Roff

  •

  MIT License

  •1•8•0•1•Updated Jun 24, 2025Jun 24, 2025

• SACK1G-analysis

  Public
  This is a GitHub Repository containing the data and code used for an structural analysis of FAM83G and FAM83G-CK1A 3D models

  Jupyter Notebook

  •0•1•0•0•Updated Jun 23, 2025Jun 23, 2025

• Colabfold_batch_installer

  Public
  Automated colabfold installation for UoD HPC Cluster

  Shell

  •0•1•1•0•Updated Jun 10, 2025Jun 10, 2025

• fenr

  Public
  Fast functional enrichment.

  R

  •

  Other

  •0•0•0•0•Updated May 28, 2025May 28, 2025

• slivka-bio

  Public
  Bioinformatics command line tools wrapped as slivka services with customisations for access from Jalview

  Python

  •

  Apache License 2.0

  •1•3•9•0•Updated Apr 29, 2025Apr 29, 2025

• LIGYSIS-custom

  Public
  Roff

  •

  MIT License

  •0•0•0•0•Updated Apr 29, 2025Apr 29, 2025

• slivka

  Public
  Python

  •

  Apache License 2.0

  •4•7•25•0•Updated Mar 31, 2025Mar 31, 2025

• MG_NICDhalf

  Public
  NICD half life from Western blots (Meijer)

  R

  •0•0•0•0•Updated Mar 31, 2025Mar 31, 2025

• MG_Methyl28S

  Public
  28S methylation in disease in Drosophila (McGurk)

  HTML

  •0•0•0•0•Updated Jan 28, 2025Jan 28, 2025

• RNAit

  Public
  Reimplementation of RNAit RNAi primer selection tool

  HTML

  •

  MIT License

  •2•0•0•0•Updated Jan 27, 2025Jan 27, 2025

• MG_yeast_Tfe

  Public
  Tfe1 and Tfe2 toxin expression in S. cerevisiae RNA-seq (Katharina Trunk)

  R

  •0•0•0•0•Updated Jan 21, 2025Jan 21, 2025

• MG_NCCProt

  Public
  Nascent Chromatin Capture Proteomics (Alabert)

  R

  •0•0•0•0•Updated Jan 14, 2025Jan 14, 2025

• PT_interogate_m6anet_results

  Public
  Determine exon location of predicted m6a methylation sites

  Python

  •

  MIT License

  •0•0•0•0•Updated Jan 9, 2025Jan 9, 2025

• SM_dundee-resource-templates

  Public
  This project serves as a template for building web-based bioinformatics tools.

  Python

  •

  Apache License 2.0

  •0•1•0•0•Updated Dec 4, 2024Dec 4, 2024

• MG_ChromCom2

  Public
  Chromatin compaction 2 (Tanaka)

  R

  •0•0•0•0•Updated Nov 27, 2024Nov 27, 2024

• LBS-comparison

  Public
  This is a GitHub Repository containing the data and code used for a thorough comparison of 11 ligand binding site prediction tools

  Jupyter Notebook

  •

  MIT License

  •2•16•1•0•Updated Nov 19, 2024Nov 19, 2024

• LIGYSIS

  Public
  Python

  •

  MIT License

  •0•5•0•0•Updated Nov 18, 2024Nov 18, 2024

• MG_T6SS_tn-seq

  Public
  Analysis of Ssp4 and Ssp6 effects on Pseudomonas fluorescens using Tn-seq (Coulthurst)

  R

  •0•0•0•0•Updated Nov 13, 2024Nov 13, 2024

• d3pendr

  Public
  Differential 3' end analysis

  Python

  •1•3•1•1•Updated Nov 4, 2024Nov 4, 2024

• ProIntVar

  Public
  The core bits of ProIntVar

  Python

  •

  MIT License

  •0•2•9•0•Updated Oct 29, 2024Oct 29, 2024

• SM_VarAlign

  Public
  Python

  •

  MIT License

  •0•3•0•0•Updated Oct 25, 2024Oct 25, 2024

• slivka-python-client

  Public
  Python

  •

  Apache License 2.0

  •0•3•3•0•Updated Oct 23, 2024Oct 23, 2024

• PT_identify_polyA_sites

  Public
  script to identify polyA start sites in nanopore direct RNAseq data mapped to a genome

  Python

  •

  MIT License

  •0•0•0•0•Updated Sep 23, 2024Sep 23, 2024

• DDUpred

  Public
  Random forest based predictor for DDU compounds

  R

  •0•0•0•0•Updated Sep 23, 2024Sep 23, 2024