Genomic Data Retrieval with R

R package providing query functionality to BioMart instances like Ensembl

A bioinformatics tool for analyzing somatic hypermutation

Rails application for storing and parsing clinical exome VCF files. Gene annotations can be retrieved via Biomart integration from Ensembl dataset. Originally developed as part of a Masters in Bioinformatics project @ University of Exeter

Async pythonic interface to Biomart.

Scripts for .bed file genomic region annotation with various tools

Make simple requests to Ensembl BioMart database.

Gene ID identification and conversion

This repository contains a fully reproducible pipeline for prioritising candidate genes and pathways from GWAS summary statistics using integrative pGWAS functional annotation to identify the most compelling targets for asthma

Orthologs Databases — Archive of bioinformatics databases and PHP processing pipelines for cross-species ortholog analysis across 7 model organisms (2012-2016). Integrates data from 21 sources including HomoloGene, InParanoid, OrthoMCL, eggNOG, BioGRID, STRING, Gene Ontology, KEGG, and Reactome.

In silico Lab Shiny App Demo Gene Annotation for a List of RefSNP IDs

Singularity container for running gene ontology anlaysis

Transcriptome Analysis of Heat and Drought-Stressed Wheat

Raw scripts for annotation, Venn, heatmap, STRINGdb, and machine learning (ML) workflows.

Shiny app that converts human gene IDs to different types using BioMart data.

R-package: wrapper for {biomaRt} functions

A collection of Jupyter notebooks for basic analysis of the data from the "BeatAML" study by Tyner et al. (2018)