an attempt to incorporate BLASTp into BUSCO

Backup an apollo instance to a git repository

Donut: automated Circos visualization of multiple fasta files within a docker image

Ergatis is a web-based utility that is used to create, run, and monitor reusable computational analysis pipelines; I was a developer on this project at The Institute for Genomic Research/J. Craig Venter Institute from 2005 to 2008.

Toolkit for handling genome annotations in various formats. Python3.

LeishDB is a database for genomic annotation of Leishmania organisms. Currently, it stores data related to coding genes and non-coding RNAs from L. braziliensis. The website is

Reference implementation of the APIs defined in ga4gh-schemas. RETIRED 2018-01-24

a_inornata research project

Linked Data Platform for Animal Breeding & Genomics

🐳 Apollo 2.X Docker Image

Spfy: an integrated graph database for real-time prediction of Escherichia coli phenotypes and downstream comparative analyses

Different approaches to calculate mappability and GC-rich tracks for danio rerio genomes

ODG: Omics Database Generator - Integration toolkit for -omics data

Workshops, Course Schedule and Teaching Assistant Review from my time as a chosen Undergraduate Teaching Assistant for the University of Pittsburgh course, BIOSC1540 - Computational Genomics taught by Dr. Miler Lee.

Pipeline for the unsupervised clustering of homologous RNA structure motifs from sequencing data.

Pipelines for gene and TE annotation of pangenomes.

SLURM-ready bash scripts to run the complete REPET pipeline