SPIRO is a Smart Plate Imaging Robot
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
Interactive Functional Annotations Dashboard
🌱🧬 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 🔗)
Nextflow pipeline for SNPmatch (https://github.com/Gregor-Mendel-Institute/SNPmatch.git)
A website to explore biological relationships between Arabidopsis thailiana genetic characteristics.
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).
Arabidopsis EcoGEx (R-📦 + 🕸️-App)
Analysis of transcriptomic dataset of A. thaliana Multi Protein Bridging Factor 1c knockout
ease of access gff files from tair for reading tair ids.
An automated pipeline for analyzing arabidopsis luciferase imaging data
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
Regularly updated version of `org.At.tair.db`.
Gene ID Retrieval from TAIR: R code to retrieve gene IDs from TAIR (The Arabidopsis Information Resource) and export them as CSV files
easing your access to arabidopsis tair
A data visualization tool to display tissue expression data for Arabidopsis thaliana
Anlysis of small RNAs in Arabidopsis SWR1 mutant (published in Choi et al. 2016, Plant Physiology, http://www.plantphysiol.org/content/171/2/1128)
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