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    20 repositories

    • marple

      Public
      Pipeline for analysis of stem rust (Pgt) and yellow rust (Pst) reads for MARPLE
      Python
      •
      GNU General Public License v3.0
      •0•2•2•0•Updated Jul 7, 2026Jul 7, 2026

    • PST130_P495001-paper

      Public
      Scripts and datasets used for the identification and analyses of the Puccinia striiformis f. sp. tritici (Pst) candidate effector, PST130_P495001.
      Jupyter Notebook
      •0•0•0•0•Updated Mar 23, 2026Mar 23, 2026

    • WheatRust

      Public
      Files for visualisation of the diversity of Wheat Yellow Rust (Puccinia striiformis) and Stem Rust (Puccinia graminis) on nextstrain.org
      0•0•0•0•Updated Sep 5, 2025Sep 5, 2025

    • LR_kmer_GWAS

      Public
      Shell
      •0•1•0•0•Updated Jun 13, 2025Jun 13, 2025

    • SIZ1-paper

      Public
      Scripts used for data analysis in the TaSIZ1 paper
      Jupyter Notebook
      •0•0•0•0•Updated Jun 7, 2025Jun 7, 2025

    • PrimerDesign-nf

      Public
      PrimerDesign Nextflow Pipeline
      Python
      •
      GNU General Public License v3.0
      •1•1•0•0•Updated May 15, 2025May 15, 2025

    • marple-pgt-paper

      Public
      Jupyter Notebook
      •0•0•0•0•Updated Sep 26, 2024Sep 26, 2024

    • PST

      Public
      Files for visualisation of the diversity of Wheat Yellow Rust (Puccinia striiformis f. sp. tritici) on nextstrain.org
      Shell
      •0•0•0•0•Updated Feb 23, 2024Feb 23, 2024

    • marple-pgt

      Public
      Pipeline for analysis of Puccinia graminis f. sp. tritici genomic reads
      Python
      •
      GNU General Public License v3.0
      •1•0•9•0•Updated Jul 4, 2023Jul 4, 2023

    • pst130_annotation

      Public
      0•0•0•0•Updated Jun 30, 2023Jun 30, 2023

    • pgt-pgs-markers

      Public
      Identification of markers to distinguish Pgs from Pgt
      Python
      •
      GNU General Public License v3.0
      •0•0•0•0•Updated Jun 20, 2023Jun 20, 2023

    • marple-pst

      Public
      Pipeline for analysis of Puccinia striiformis f.sp. tritici genomic reads
      HTML
      •
      GNU General Public License v3.0
      •2•1•17•0•Updated Feb 24, 2023Feb 24, 2023

    • Rust_Expression_Browser

      Public
      R
      •0•0•0•0•Updated Nov 6, 2020Nov 6, 2020

    • Field_Pathogenomics

      Public
      HTML
      •0•0•0•0•Updated Sep 3, 2020Sep 3, 2020

    • MARPLE_plant_pathogen_diagnostics

      Public
      Scripts for realtime surveillance of plant pathogens using the MinION sequencer (Radhakrishnan et al.,)
      Python
      •1•0•0•0•Updated Feb 20, 2020Feb 20, 2020

    • GenomeAnnotation

      Public
      Jupyter Notebook
      •0•1•0•0•Updated Aug 15, 2018Aug 15, 2018

    • bioluigi

      Public
      Some useful shared tool for using luigi on the cluster and some tasks performing common bioinformatics stuff
      Python
      •0•0•0•0•Updated Aug 13, 2018Aug 13, 2018

    • FieldPathogenomics

      Public
      Python
      •1•1•0•0•Updated Aug 12, 2018Aug 12, 2018

    • FP_notebooks

      Public
      A collection of Jupyter notebooks for doing analysis on the field pathogenomics project
      Jupyter Notebook
      •0•0•0•0•Updated Nov 22, 2017Nov 22, 2017

    • PSTGenome

      Public
      Python
      •0•0•0•0•Updated Jul 29, 2017Jul 29, 2017
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