Uauy-Lab

Pinned Repositories

biojs-vis-expression-bar
Language:JavaScript25
bioruby-pangenome
Scripts for the pan genome analysis
Language:Ruby7 4 00
bioruby-polymarker
Webinterface for PolyMarker
Language:CSS2 2 73
bioruby-polyploid-tools
Library and tools to deal with polyploid genomics
Language:Ruby10 6 1311
expvip-web
expVIP. EXPression and VIsualisation Platform
Language:Ruby17 6 5110
IBSpy
Python library to identify Identical By State regions
Language:C++14 4 54
monococcum_introgressions
Analysis of monococcum introgressions into hexaploid wheat
Language:Jupyter Notebook2 0 02
pangenome-haplotypes
Scripts to do haplotype analysis on pan genomes.
Language:HTML21 3 13
pangenome-web
Web visualisation of regions identical by descent.
Language:Ruby60
WheatHomoeologExpression
Language:Jupyter Notebook15 2 39

Uauy-Lab's Repositories

Uauy-Lab/pangenome-haplotypes
Scripts to do haplotype analysis on pan genomes.
Language:HTML21 3 13
Uauy-Lab/expvip-web
expVIP. EXPression and VIsualisation Platform
Language:Ruby17 6 5110
Uauy-Lab/WheatHomoeologExpression
Language:Jupyter Notebook15 2 39
Uauy-Lab/IBSpy
Python library to identify Identical By State regions
Language:C++14 4 54
Uauy-Lab/bioruby-polyploid-tools
Library and tools to deal with polyploid genomics
Language:Ruby10 6 1311
Uauy-Lab/bioruby-pangenome
Scripts for the pan genome analysis
Language:Ruby7 4 00
Uauy-Lab/pangenome-web
Web visualisation of regions identical by descent.
Language:Ruby60
Uauy-Lab/biojs-vis-expression-bar
Language:JavaScript25
Uauy-Lab/bioruby-polymarker
Webinterface for PolyMarker
Language:CSS2 2 73
Uauy-Lab/monococcum_introgressions
Analysis of monococcum introgressions into hexaploid wheat
Language:Jupyter Notebook2 0 02
Uauy-Lab/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
Language:R1 1 02
Uauy-Lab/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.
Language:Python1 0 00
Uauy-Lab/bio.tilling
R scripts to plot/analyse coverage from BED files
Language:R4 01
Uauy-Lab/EMS-filter
Notebooks on how to filter EMS mutations from noise
Language:Jupyter Notebook2 0
Uauy-Lab/igv.js
Embeddable genomic visualization component based on the Integrative Genomics Viewer
Uauy-Lab/K2282_scripts
Scripts from the K2282 Mapping Paper
Language:Shell4 0
Uauy-Lab/MLP_finding
Language:Python3 0
Uauy-Lab/pyensemblorthologues
Language:Python4 0
Uauy-Lab/tef_kGWAS_2024
Custom bash and R code used for a project applying k-mer-based GWAS to a range of agronomic and grain metabolite traits in tef (Eragrostis tef)
Language:R0 0
Uauy-Lab/transcript_to_genomic_loci
Translating transcript-relative loci to genome-relative loci
Uauy-Lab/Uauy_Lab_RNAseq_mapping_pipeline
A small pipeline for generating transcriptomic data from raw FASTQ files via Fastp trimming and Kallisto pseudoalignment.
Language:Shell0 0