MitoZ: A toolkit for assembly, annotation, and visualization of animal mitochondrial genomes

A pipeline for viral identification from metagenomic samples

SARS-CoV-2 Genome Assembler

Generate statistics from FASTQ and FASTA files. Also manipulate sequences such as renaming contigs and converting FASTQ to FASTA. Written in Bash. All in one place.

Library-free horizontal transfer detection, with a focus on transposable element invasions

Teaching Material for Course "Computational Bioscience & Machine Learning 2021 - Genome Assembly"

Analysis workflow to generate fungal assemblies, generate gene structural and functional annotations

Scripts and notes related to the manuscript: Stuart KC & Edwards RJ et al. 2022. Transcript- and annotation-guided genome assembly of the European starling. Molecular Ecology Resources, doi.org/10.1101/2021.04.07.438753. † joint first author

VIPER is a user-friendly software for assembling and identifying viral genomes (currently SARS-CoV-2, Dengue, and Influenza), from Illumina sequencing data generated through genomic surveillance.

This is a template for all assembly projects. Please read the instructions below on how to use it.

Fast microbial species identification (16S rRNA gene-based approach) and contamination check using whole genome assemblies

Genomics Part of the KAUST High Throughput Sequencing Workshop 2019

Patch for LRSDAY v1.6 for Debian-based and SUSE-based OS.

Workflow to run Diploidocus on Setonix

example genomics workflow for student training

Scripts used by George S. Long

This repository contains scripts used to process the metagenomic and 16S rRNA gene amplicon data obtained from biological soil crusts in at the Avdat site in the Negev Desert, Israel. The results and discussion of the analysis are published in the manuscript "Distribution of mixotrophy and desiccation survival mechanisms across microbial genomes…

De novo genome assembly of subset of the durian fruit genome.

a slurm configuration analytical pipline for the analysis of the pacbiohifi sequencing genomes using the verkko, hifiasm and the genomeasm4pg. only provide the link to the sequencing or the files with the folder and rest it will do the work

All scripts related to genome assembly for giant wētā