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@stajichlab

Jason Stajich Lab at UC Riverside

Evolutionary Genomics of Fungi projects, data and software
README.md

These repositories for the Stajich laboratory at UC Riverside focused on Genomics, Bioinformatics, Evolution of (mostly) Fungi and Microbes.

https://lab.stajich.org

See our Standard Operating Procedures are (in progress) documentation on procedures and onboarding.

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  1. Phyling Phyling Public

    Phyling: phylogenetic inference from annotated genomes

    Python 34 4

  2. AAFTF AAFTF Public

    Automatic Assembly For The Fungi

    Python 27 6

  3. SOP_data SOP_data Public

    Standard Operating Procedures

    1

  4. funannotate_template funannotate_template Public template

    Project template for doing a funannotate annotation set

    Shell 3 1

  5. PopGenomics_template PopGenomics_template Public template

    Template for Population Genomics variant calling

    Shell 3 3

  6. Comparative_pipeline Comparative_pipeline Public

    Comparative genomics pipeline

    Perl 11 6

Repositories

Showing 10 of 246 repositories
  • SSF_PRB_Fungal_Genomes Public

    Powder River Basin cultured fungal genomes

    stajichlab/SSF_PRB_Fungal_Genomes's past year of commit activity
    HTML 0 MIT 0 0 0 Updated Oct 8, 2026
  • NovInvenio Public
    stajichlab/NovInvenio's past year of commit activity
    Python 1 0 7 1 Updated Oct 8, 2026
  • MATPredict Public

    This repository is dedicated to the development of a tool that can predict MAT loci in fungi.

    stajichlab/MATPredict's past year of commit activity
    Python 0 MIT 0 0 0 Updated Oct 8, 2026
  • adhesionPred Public

    Adhesion protein prediction

    stajichlab/adhesionPred's past year of commit activity
    Python 0 MIT 0 10 2 Updated Oct 8, 2026
  • RelocaTE3 Public

    ReLocaTE code for identifying Transposons (TE) in genomes using re-sequencing data

    stajichlab/RelocaTE3's past year of commit activity
    Python 3 MIT 0 1 0 Updated Oct 7, 2026
  • NovInvenio_Investigations Public

    Analysis with nf_NovInvenio tool

    stajichlab/NovInvenio_Investigations's past year of commit activity
    Python 0 0 1 0 Updated Oct 7, 2026
  • Rhodmuc_PopulationGenomics Public

    Population Genomics for Rhodotorula mucilaginosa using DH4148 as ref genome for now

    stajichlab/Rhodmuc_PopulationGenomics's past year of commit activity
    Python 0 0 7 0 Updated Oct 6, 2026
  • nf_genotype_population Public
    stajichlab/nf_genotype_population's past year of commit activity
    Nextflow 0 0 1 0 Updated Oct 7, 2026
  • Fungi_BFD Public

    Fungi Big-Fun-Data

    stajichlab/Fungi_BFD's past year of commit activity
    Python 2 0 1 0 Updated Oct 5, 2026
  • Phyling Public

    Phyling: phylogenetic inference from annotated genomes

    stajichlab/Phyling's past year of commit activity
    Python 34 MIT 4 3 6 Updated Oct 5, 2026
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