A versatile, fully open-source pipeline to extract phenotypic measurements from plant images
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 data visualization tool to display tissue expression data for Arabidopsis thaliana
A collection of R functions to conduct downstream GWAS analysis for arabidopsis thaliana.
A web based app developed using the R package shiny to explore the transcriptional network downstream from the Arabidopsis thaliana transcriptional factor BRC1.
The related code of the master thesis, "Using deep learning to predict gene structures of the coding genes in DNA sequences of Arabidopsis thaliana"
Nextflow pipeline to assemble genomes from long reads.
Arabidopsis Thaliana TRanscriptionAl Circadian neTwORk, a web based tool developed using the R package shiny for the exploration and analysis of a transcriptional network in Arabidopsis thaliana constituted by circadian and light responsive transcriptional factors and regulators
Division event and resulting topological changes prediction of Arabidopsis thaliana shoot apical and floral meristems
Scripts associated with understanding the genomic features of NLRs in Arabidopsis thaliana Col-0
Constraint-based modeling of photorespiratory mutants using metabolomics in TMFA
A comparison of classical and machine learning-based phenotype prediction methods on simulated data and three plant species
The repository contains all the scripts necessary for the bioinformatic characterisation of the IDRs of Arabidopsis transcription factors.
Simulation of hydraulic root architecture
A website to explore biological relationships between Arabidopsis thailiana genetic characteristics.
Bioinformatics pipeline for lncRNA prediction in Arabiodpsis thaliana
GOLIAT - Gene Ontology LInk Analysis Tool.
This repository contains data and code to reproduce analyses reported in the manuscript, "A keystone gene underlies the persistence of an experimental food web".
Repo containing the practical part of my Master's Thesis (in Serbian)
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