A containerized nextflow pipeline designed to annotate prokaryote genomes.
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Updated
Mar 13, 2022 - Nextflow
A containerized nextflow pipeline designed to annotate prokaryote genomes.
Empirical intron annotation for Loxodes magnus genome assembly
Scripts I wrote as a graduate research assistant while working on the Wyeomyia smithii Genome project for Dr. Elizabeth Cooper's Lab at UNC Charlotte
Arche: a functional-optimized annotator for microbial meta(genomes)
this function takes ids file with the gene of interest and the phytozome gff files and will fetch the pacid for the genes of interest.
a ruby gem for the parsing and extraction of the miniprot alignments to extract locus specific, ids specific, and score and iters
A genome annotation length calculator written in ruby. It invokes the shell subprocess with in ruby to parse the iterators at the faster rate. if you have dozens of genome sequenced, simply mention the column number and the iterator will hash the length. added support for the features as
Linked Data Platform for Animal Breeding & Genomics
Hands-on Introduction to Data Analysis for Genomics and Transcriptomics
Retroviral Integration Pattern Analysis Tool
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.
Scripts for Hill et al. (2023) doi:10.1093/gbe/evad038 🌿
De novo assembly of the red legged patridge (Alectoris rufa) genome
🐳 Apollo 2.X Docker Image
Website on genome annotation
final project of the advanced programming classes, course of Genomics bachelor degree - UniBo.
a miniprot alignments to get the alignment ranges for the protein alignments that were done to generate the hints and also to generate the tabulated table for the length preparation
Archive of personal scripts repository from my various projects in the Buell Lab at MSU (Jan. 2008 - Apr. 2011)
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