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bio.tilling

R scripts to plot/analyse coverage from BED files

biojs-vis-expression-bar

bioruby-pangenome

Scripts for the pan genome analysis

bioruby-polymarker

Webinterface for PolyMarker

bioruby-polyploid-tools

Library and tools to deal with polyploid genomics

ems-filter

Notebooks on how to filter EMS mutations from noise

expvip-web

expVIP. EXPression and VIsualisation Platform

genie3_scripts

Scripts used in the manuscript "Validation and characterisation of the wheat GENIE3 network using an independent RNA-Seq dataset." from Harrington et al. 2019

ibspy

Python library to identify Identical By State regions

igv.js

Embeddable genomic visualization component based on the Integrative Genomics Viewer

k2282_scripts

Scripts from the K2282 Mapping Paper

ml-carpel_traits

This repository contains the training codes for the development of the model used to quantify stigma area and ovary diameter. The trained models are also included. R scripts used for data organisation and visualisation are provided.

mlp_finding

monococcum_introgressions

Analysis of monococcum introgressions into hexaploid wheat

pangenome-haplotypes

Scripts to do haplotype analysis on pan genomes.

pangenome-web

Web visualisation of regions identical by descent.

pyensemblorthologues

uauy_lab_rnaseq_mapping_pipeline

A small pipeline for generating transcriptomic data from raw FASTQ files via Fastp trimming and Kallisto pseudoalignment.

wheathomoeologexpression