Repositories list

• Gout_GWAS_Code

  Public
  Repository for all the codes written for gout GWAS meta-analysis and all other analyses that used the meta-analysis results

  R

  •

  GNU General Public License v3.0

  •0•2•0•0•Updated Aug 20, 2024Aug 20, 2024

• GenomicPred

  Public
  Shell

  •1•0•0•1•Updated Jul 31, 2023Jul 31, 2023

• PRS-Project

  Public
  Repository for all code related to my polygenic risk score project

  HTML

  •0•0•0•0•Updated Jan 30, 2023Jan 30, 2023

• selectionTools

  Public archive
  Pipeline to take VCF through to Selection Analysis.

  Python

  •

  MIT License

  •25•58•15•1•Updated Dec 11, 2022Dec 11, 2022

• merrimanlab.github.io

  Public
  HTML

  •

  MIT License

  •2•1•0•0•Updated May 18, 2022May 18, 2022

• human_genomics_pipeline

  Public
  A simple Snakemake workflow to process paired-end sequencing data (WGS) using bwa/GATK4.

  Python

  •21•1•0•1•Updated Apr 19, 2022Apr 19, 2022

• NeSI_GATK

  Public
  workflow for GATK on NeSI

  Shell

  •

  MIT License

  •0•3•4•0•Updated Dec 13, 2021Dec 13, 2021

• CETP-Project

  Public
  1•0•0•0•Updated Sep 8, 2021Sep 8, 2021

• variant_calling_pipeline

  Public
  Python

  •0•1•0•0•Updated May 20, 2021May 20, 2021

• gwasDB

  Public
  Database to store summary results from GWAS

  R

  •0•0•4•0•Updated Dec 9, 2020Dec 9, 2020

• gsClustBrowse

  Public
  Shiny app for browsing the exported intensities from Genome Studio

  R

  •

  MIT License

  •2•0•2•0•Updated Jul 15, 2020Jul 15, 2020

• old_website

  Public
  Lab website

  CSS

  •

  MIT License

  •5•8•0•0•Updated Oct 2, 2019Oct 2, 2019

• merrimanR

  Public
  An R package containing useful functions

  R

  •

  MIT License

  •1•0•0•0•Updated Aug 5, 2019Aug 5, 2019

• PCAplotting

  Public
  PCA plotting app

  R

  •3•1•0•0•Updated Feb 19, 2018Feb 19, 2018

• Cadzow2017_Ukbiobank_Gout

  Public
  Code used in the analysis of https://arthritis-research.biomedcentral.com/articles/10.1186/s13075-017-1390-1

  R

  •1•1•0•0•Updated Aug 15, 2017Aug 15, 2017

• GWASPipeline

  Public
  A basic GWAS analyses workflow. Worked examples provided in rendered markdown.

  HTML

  •5•6•0•0•Updated Nov 11, 2016Nov 11, 2016

• ExporatoryGenomes

  Public
  Exploratory and visual analytical tools for plant genomes.

  1•2•0•0•Updated Nov 3, 2016Nov 3, 2016

• GenomeDB

  Public
  GenomeDB is a generic database schema for genome-wide summary datasets. The goal is to be able to provide a general abstraction suited to any form of genome analysis, for example GWAS, QTL, gene expression, regulatory peaks...

  HTML

  •0•1•1•0•Updated Oct 26, 2016Oct 26, 2016

• GWrangle

  Public
  Helpful code, scripts and functions fro wrangling genomic datasets

  R

  •0•0•0•0•Updated Oct 3, 2016Oct 3, 2016

• CommonWorkflows

  Public
  A repository to document common workflows or computational protocols (for example merging and subsetting VCF files).

  0•0•0•0•Updated Oct 3, 2016Oct 3, 2016

• GeneExpressionAnalysis

  Public
  Shiny app for basic exploration of gene expression datasets

  HTML

  •0•0•0•0•Updated Sep 20, 2016Sep 20, 2016

• glida

  Public
  GLIDA is a tool to help analyse patterns of LD. Primarily visual and exploratory-based, with the ability to add gene annotations.

  HTML

  •0•0•0•0•Updated Jul 24, 2016Jul 24, 2016

• eQTL_project

  Public
  Development of a central data warehouse for eQTL and gene expression data. Including a SHINY interface to perform lookups and basic exploration.

  R

  •0•2•0•0•Updated Jul 21, 2016Jul 21, 2016

• snp_design

  Public
  Designs custom probes for SNPs with NO ID

  Python

  •3•2•0•0•Updated Jun 23, 2016Jun 23, 2016

• merrimanDW

  Public
  R

  •

  MIT License

  •0•0•0•0•Updated Jun 23, 2016Jun 23, 2016

• GTExEDA

  Public
  Visualisation and exploration of gene expression data from GTEx, using R's data.table package.

  HTML

  •0•1•0•0•Updated Jun 15, 2016Jun 15, 2016

• Impute

  Public
  Shell

  •

  MIT License

  •0•0•0•0•Updated May 18, 2016May 18, 2016

• Kottgen_ReseqAnalysis

  Public
  Various resequencing trials with the Kottgen data

  0•1•0•0•Updated Apr 19, 2016Apr 19, 2016

• LDCalculator

  Public
  Shiny Interface for the calculation of Linkage Disequilibrium.

  R

  •2•7•0•0•Updated Apr 7, 2016Apr 7, 2016

• PennCNV

  Public
  Copy number vaiation detection from SNP arrays

  C

  •

  Other

  •53•0•0•0•Updated Mar 28, 2016Mar 28, 2016