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Jason Stajich Lab at UC Riverside

Evolutionary Genomics of Fungi projects, data and software

35 followers
RIverside, CA
http://lab.stajich.org
@stajichlab
jason.stajich@ucr.edu

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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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Phyling Phyling Public

Phyling: phylogenetic inference from annotated genomes

Python 33 4
AAFTF AAFTF Public

Automatic Assembly For The Fungi

Python 26 6
SOP_data SOP_data Public

Standard Operating Procedures

1
funannotate_template funannotate_template Public template

Project template for doing a funannotate annotation set

Shell 3 1
PopGenomics_template PopGenomics_template Public template

Template for Population Genomics variant calling

Shell 3 2
Comparative_pipeline Comparative_pipeline Public

Comparative genomics pipeline

Perl 11 6

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Showing 10 of 234 repositories

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 Jul 11, 2026
Phyling Public
Phyling: phylogenetic inference from annotated genomes

stajichlab/Phyling’s past year of commit activity

Python 33 MIT 4 4 0 Updated Jul 9, 2026
Rhodotorula_MS2_pheno_explore Public
MS2 metabolite-color phenotype analysis pipeline for Rhodotorula strains

stajichlab/Rhodotorula_MS2_pheno_explore’s past year of commit activity

Python 0 MIT 0 0 0 Updated Jul 4, 2026
Rhodotorula_StrainDB Public
Strain database with metadata query/import support

stajichlab/Rhodotorula_StrainDB’s past year of commit activity

Python 0 MIT 0 0 0 Updated Jul 1, 2026
orthoSynAssign Public
Assign orthologs within many-many groups with synteny

stajichlab/orthoSynAssign’s past year of commit activity

Python 2 GPL-3.0 1 0 0 Updated Jun 30, 2026
Cramer_Vellanki_scRNA_Biofilm Public
scRNA Afum analysis

stajichlab/Cramer_Vellanki_scRNA_Biofilm’s past year of commit activity

Shell 0 0 0 0 Updated Jun 30, 2026
nf_funannotate1 Public
Annotation strategy for Eukaryotic genomes with auto incorporation of public evidence

stajichlab/nf_funannotate1’s past year of commit activity

Nextflow 0 MIT 0 3 0 Updated Jun 29, 2026
adhesionPred Public
Adhesion protein prediction

stajichlab/adhesionPred’s past year of commit activity

Python 0 MIT 0 0 6 Updated Jun 27, 2026
Fungi_BFD Public
Fungi Big-Fun-Data

stajichlab/Fungi_BFD’s past year of commit activity

Python 0 0 0 0 Updated Jun 27, 2026
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 447 0 1 Updated Jun 24, 2026

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