Skip to content
@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.

Pinned Loading

  1. Phyling Phyling Public

    Phyling: phylogenetic inference from annotated genomes

    Python 18 5

  2. AAFTF AAFTF Public

    Automatic Assembly For The Fungi

    Python 24 5

  3. SOP_data SOP_data Public

    Standard Operating Procedures

  4. funannotate_template funannotate_template Public template

    Project template for doing a funannotate annotation set

    Shell 2 1

  5. PopGenomics_template PopGenomics_template Public template

    Template for Population Genomics variant calling

    Shell 2 2

  6. Comparative_pipeline Comparative_pipeline Public

    Comparative genomics pipeline

    Perl 10 6

Repositories

Showing 10 of 213 repositories
  • Fungi_5k Public

    Fungi5k dataset analysis

    stajichlab/Fungi_5k’s past year of commit activity
    Python 0 1 0 0 Updated Aug 5, 2025
  • Phyling Public

    Phyling: phylogenetic inference from annotated genomes

    stajichlab/Phyling’s past year of commit activity
    Python 18 MIT 5 6 0 Updated Aug 2, 2025
  • PopGenomics_Coccidioides_2025 Public

    Combined analysis set for 2025 freeze of Coccidioides strains

    stajichlab/PopGenomics_Coccidioides_2025’s past year of commit activity
    Shell 0 0 0 0 Updated Aug 2, 2025
  • AAFTF Public

    Automatic Assembly For The Fungi

    stajichlab/AAFTF’s past year of commit activity
    Python 24 MIT 5 11 0 Updated Jul 29, 2025
  • stajichlab.github.io Public Forked from greenelab/lab-website-template

    Stajich Lab Website

    stajichlab/stajichlab.github.io’s past year of commit activity
    HTML 0 BSD-3-Clause 392 0 0 Updated Jul 25, 2025
  • ExtremeRhodotorula_RefGenomes Public

    Reference Genome Assembly and Annotation for Rhodotorula genomes in "Extreme Rhodotorula" project

    stajichlab/ExtremeRhodotorula_RefGenomes’s past year of commit activity
    Shell 0 MIT 0 0 0 Updated Jul 2, 2025
  • Afumigatus_pangenome Public

    A. fumigatus pangenome analyses

    stajichlab/Afumigatus_pangenome’s past year of commit activity
    Pep8 0 MIT 0 0 0 Updated Jun 17, 2025
  • RolshausenLab_Aspergillus_DatePalm Public

    Aspergillus tubingensis DFA genome sequencing and annotation

    stajichlab/RolshausenLab_Aspergillus_DatePalm’s past year of commit activity
    Shell 1 MIT 1 0 0 Updated Jun 15, 2025
  • ExtremeRhodotorula_Hybrid_Diploid Public

    Investigating potential diploid/hybrid strains

    stajichlab/ExtremeRhodotorula_Hybrid_Diploid’s past year of commit activity
    Python 0 0 0 0 Updated Jun 13, 2025
  • Antarctica_Endolithic_Eukaryotic_MAG Public

    Eukaryotic MAGs from Endolithic metagenome sampling

    stajichlab/Antarctica_Endolithic_Eukaryotic_MAG’s past year of commit activity
    Shell 0 MIT 0 0 0 Updated May 27, 2025
View all repositories

Top languages

Loading…

Most used topics

Loading…