arabidopsis
There are 25 repositories under arabidopsis topic.
BioAnalyticResource/eFP-Seq_Browser
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.
Gregor-Mendel-Institute/SNPmatch
A simple python library to identify the most likely strain from the population
jonasoh/spiro
SPIRO is a Smart Plate Imaging Robot
zouyinstein/hifisr
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).
BioAnalyticResource/ePlant_Plant_eFP
A data visualization tool to display tissue expression data for Arabidopsis thaliana
mishaploid/AA-GenomicPrediction
Genomic prediction of amino acid traits in Arabidopsis seeds
Ingefast/small_RNA_analyser
A pipeline to analyse small RNA expression using Illumina sequencing data
nschan/nf-arassembly
Nextflow pipeline to assemble genomes from nanopore reads.
athieffry/Thieffry_et_al_2022_Plant_Cell
🌱🧬 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 🔗)
bpucker/At7
Python scripts related to the At7 sequencing project
gauravcodepro/tairaccession
tairaccession python package for interaction with tair and analyzing arabidopsis genome.
sk-sahu/EcoGEx
Arabidopsis EcoGEx (R-📦 + 🕸️-App)
Sweekwang/golabel
A website to explore biological relationships between Arabidopsis thailiana genetic characteristics.
Tomas-P/Luciferase-pipeline
An automated pipeline for analyzing arabidopsis luciferase imaging data
athieffry/Thieffry_et_al_2020_Plant_Cell
🌱🧬 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 🔗)
hagax8/arabidopsis_viz
Clustering of 1,135 Arabidopsis thaliana genomes from 1001 Genomes Project (https://1001genomes.org/)
lmuenter/org.At.tair.db
Regularly updated version of `org.At.tair.db`.
rbpisupati/nf-snpmatch
Nextflow pipeline for SNPmatch (https://github.com/Gregor-Mendel-Institute/SNPmatch.git)
Renee-Napoliello/Transcriptomic-Analysis-Arabidopsis-MPBF1c-Knockout
Analysis of transcriptomic dataset of A. thaliana Multi Protein Bridging Factor 1c knockout
gauravcodepro/arabidopsis-api-tair
easing your access to arabidopsis tair
gauravcodepro/arabidopsis-maf-cap-accessions
arabidopsis-maf-cap-accessions. genome extraction, alignments, visualization, phylogenomics, ancestral tree
gauravcodepro/arabidopsis-ontology-graphs
a streamlit application to interact with arabidopsis plant obo for graphviz and other functions
seb-mueller/small-RNA_SWR1
Anlysis of small RNAs in Arabidopsis SWR1 mutant (published in Choi et al. 2016, Plant Physiology, http://www.plantphysiol.org/content/171/2/1128)
sivkri/gene-id-retrieval-from-TAIR
Gene ID Retrieval from TAIR: R code to retrieve gene IDs from TAIR (The Arabidopsis Information Resource) and export them as CSV files
tair/ifad-backend
Interactive Functional Annotations Dashboard