An RNA-Seq data exploration tool that shows read map coverage of a gene of interest along with a coloured "electronic fluorescent pictographic" (eFP) based on its RPKM expression level.

A simple python library to identify the most likely strain from the population

SPIRO is a Smart Plate Imaging Robot

HiFi-SR is a Python-based pipeline for the detection of plant mitochondrial structural rearrangements based on the mapping of PacBio high-fidelity (HiFi) reads or Circular Consensus Sequencing (ccs) data, to a reference genome (i.e., the hypothetical master cycle DNA).

A data visualization tool to display tissue expression data for Arabidopsis thaliana

Genomic prediction of amino acid traits in Arabidopsis seeds

Nextflow pipeline to assemble genomes from long reads.

A pipeline to analyse small RNA expression using Illumina sequencing data

🌱🧬 Collection of scripts for the paper: "PAMP-triggered genetic reprogramming involves widespread alternative transcription initiation and an immediate transcription factor wave" (The Plant Cell 2022; PMID 35404429 🔗)

An automated pipeline for analyzing arabidopsis luciferase imaging data

A website to explore biological relationships between Arabidopsis thailiana genetic characteristics.

Arabidopsis EcoGEx (R-📦 + 🕸️-App)

Python scripts related to the At7 sequencing project

Interactive Functional Annotations Dashboard

Analysis of transcriptomic dataset of A. thaliana Multi Protein Bridging Factor 1c knockout

ease of access gff files from tair for reading tair ids.

Nextflow pipeline for SNPmatch (https://github.com/Gregor-Mendel-Institute/SNPmatch.git)

Clustering of 1,135 Arabidopsis thaliana genomes from 1001 Genomes Project (https://1001genomes.org/)

🌱🧬 Collection of scripts for the paper: 📑 "Characterization of Arabidopsis thaliana Promoter Bidirectionality and Antisense RNAs by Inactivation of Nuclear RNA Decay Pathways" (The Plant Cell 2020; PMID 32213639 🔗)

phylogenomics analysis for arabidopsis maf-cap genes