Geoff Barton's Computational Biology Group (@bartongroup)
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Top repositories

1

Proteus

R package for analysing proteomics data
R
47
star
2

RATS

Relative Abundance of Transcripts: An R package for the detection of Differential Transcript isoform Usage.
R
32
star
3

2passtools

Two pass alignment for long reads
Python
20
star
4

AlmostSignificant

A server for maintaining high-throughput sequencing QC data
Python
13
star
5

yanocomp

Yet another nanopore modification comparison tool
Python
11
star
6

differr_nanopore_DRS

Scripts for identifying sites with differential error rates in mapped nanopore DRS data
Python
10
star
7

profDGE48

Code base for profiling highly replicated differential gene expression RNA-seq.
Perl
10
star
8

Simpson_Barton_Nanopore_1

jupyter notebooks for Parker et al. eLife 2019
Jupyter Notebook
7
star
9

d3pendr

Differential 3' end analysis
Python
3
star
10

ProteoFAV

Open-source framework for simple and fast integration of protein structure data with sequence annotations and genetic variation
Python
3
star
11

LBS-comparison

This is a GitHub Repository containing the data and code used for a thorough comparison of 11 ligand binding site prediction tools
Jupyter Notebook
3
star
12

RoSA

Antisense analysis scripts
Python
2
star
13

aacon

AACon: A Fast Amino Acid Conservation Calculation Service
Java
2
star
14

slivka-bio

Bioinformatics command line tools wrapped as slivka services with customisations for access from Jalview
Python
2
star
15

yanosim

Nanopore DRS read simulator
Python
2
star
16

FM_FunPDBe

Scripts for adding functional annotations to FunPDBe
Python
2
star
17

dexdash

Interactive explorer for differential expression analysis centred on the volcano plot. Features fast functional enrichment.
R
2
star
18

Simpson_Barton_FPA_NLRs

FPA NLR paper pipelines & notebooks
Jupyter Notebook
2
star
19

FRAGSYS

Jupyter Notebook
2
star
20

two_pass_alignment_pipeline

Snakemake pipeline for two pass alignment
Jupyter Notebook
2
star
21

slivka-python-client

Python
2
star
22

SM_VarAlign

Python
2
star
23

SM_Pfam-gnomAD-pipeline

Python
2
star
24

ProIntVar

The core bits of ProIntVar
Python
2
star
25

SM_dundee-resource-templates

This project serves as a template for building web-based bioinformatics tools.
Python
1
star
26

MG_GlycoTreg

Glycosyltransferases and glycosidases in Treg activation
R
1
star
27

ipr2jalview

Reformats InterPro annotations into a Jalview format feature file
Python
1
star
28

Breast_cancer_over_70

Breast cancer data analysis
R
1
star
29

covid19-ace2-variants

Research code and data to interpret the effect of ACE2 variants on SARS-CoV-2 infection
Jupyter Notebook
1
star
30

KF_arabidopsis-GRNA

The scripts bundle included with the manuscript.
Perl
1
star
31

MG_ProteusPaper

Application note on Proteus
1
star
32

SM_Pfam-gnomAD-statistics

Repository containing notebooks to compute statistics in the paper "A unified approach to evolutionary conservation and population constraint in proteins".
1
star
33

statistics_course

Figures for lectures on statistics
R
1
star
34

Colabfold_batch_installer

Automated colabfold installation for UoD HPC Cluster
Shell
1
star
35

slivka-bio-docker

Docker Compose configuration for slivka-bio
Dockerfile
1
star