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.
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).
SPIRO is a Smart Plate Imaging Robot
A simple python library to identify the most likely strain from the population
A data visualization tool to display tissue expression data for Arabidopsis thaliana
Genomic prediction of amino acid traits in Arabidopsis seeds
A pipeline to analyse small RNA expression using Illumina sequencing data
Nextflow pipeline to assemble genomes from long reads.
拟南芥根单细胞RNA-seq分析：细胞图谱、发育轨迹与细胞通讯
An automated pipeline for analyzing arabidopsis luciferase imaging 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 🔗)
Python scripts related to the At7 sequencing project
Arabidopsis EcoGEx (R-📦 + 🕸️-App)
A website to explore biological relationships between Arabidopsis thailiana genetic characteristics.
Desktop annotation, segmentation, time-series tracking, and phenotyping for Hades and Lucifer plant imaging datasets.
Gene ID Retrieval from TAIR: R code to retrieve gene IDs from TAIR (The Arabidopsis Information Resource) and export them as CSV files
RNA-seq reanalysis of Arabidopsis drought response using HISAT2, featureCounts and DESeq2
Cross-species ontology and SBGN pathway maps for quantum-biological processes: identifier-bound nodes carrying radical-pair/Fe-S/flavin annotations with an explicit evidence tier, plus NASA OSDR data projection. Companion to a near-null magnetic field review.
A toolbox to simulate crosses and play with quantitative genetics in Python
Reanalisis de direct RNA-seq (Nanopore) del mutante anac017 de Arabidopsis con el pipeline K-CHOPORE.
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