Joseph7e/Bioinformatic-Tutorials
This is a table of contents to the Hubbard Center for Genome Studies bioinformatic tutorials and resources.
University of New Hampshire # Hubbard Center for Genome Studies # Bioinformatics, Genomics and more
Repositories
Joseph7e/HCGS_Metabarcoding_Tutorials
Workflow for qiime2 workshop
Joseph7e/MAKER-genome-annotations-tutorial
Construct ab initio gene prediction using only BUSCO augustus models. Add in transcriptome for extra support
Joseph7e/MDIBL-T3-WGS-Tutorial
Bacterial Genome Assembly and Assessment
Joseph7e/Assign-Taxonomy-with-BLAST
Assign taxonomy with blast, can be used for qiime
Joseph7e/HCGS-Comparative-Genomics
NCBI download and Orthofinder analysis
Joseph7e/Nematode-Mitochondrial-Metagenomics
scripts and data for the analyses in the manuscript - Nematode Mitochondrial Metagenomics – a New Tool for Biodiversity Analysis
Joseph7e/PRMT5_MCC_alt-splicing
Joseph7e/HCGS-BASH-tutorial
Getting started on a server
Joseph7e/Nanopore-Workflow
Working pipeline for nanopore + illumina data
Joseph7e/Genome-Sequencing-and-Comparative-Genomic-Analysis
NIGMS cloud module development for comparative genomic analysis
Joseph7e/Tick-Surveillance
Bioinformatic workflows and tools for DNA sequencing analysis of tick species.
Joseph7e/genetic-relatedness
HTML for genetic relatedness lesson with PLINK
Joseph7e/summarize-snps-with-gff
Joseph7e/Island-Finder-Scripts
Joseph7e/CIRCOS-and-COG
Joseph7e/seqtk
Toolkit for processing sequences in FASTA/Q formats
Joseph7e/MDIBL-T3-WGS-Comparative
Joseph7e/HCGS-Genomics-Tutorial
Joseph7e/Assess-NCBI-sequence-availability
This repository contains scripts and bioinformatics workflows for various use cases of the NCBI taxonomy database and the collection of various sequence databases.
Joseph7e/NG-MMAT
Joseph7e/Coronavirus-Bioinformatic-Exercises
Joseph7e/Marker-genes-as-predictors-of-shared-genomic-function
Scripts and data for Sevigny et al. 2018. Marker genes as predictors of shared genomic function.
Joseph7e/Target-Enrichment-of-Metazoan-Mitochondrial-DNA-with-Hybridization-Capture-Probes
code and tutorials for data analyses related to the manuscript submitted to Ecological Indicators
Joseph7e/Brain
Joseph7e/NGMSAT
Program to identify primers and repeat counts from Illumina FASTQs - targeting microsatellite loci
Joseph7e/Mitobin
Scripts and data for the mitobin program
Joseph7e/Joseph7e
Personal and Professional Website - Joseph L. Sevigny
Joseph7e/Biodiversity-estimates-and-ecological-interpretations-of-meiofaunal-communities
Repository to house code for Leasi et al. 2018
Joseph7e/Meiofauna-Phylogeography
Git to hold complete scripts and files related to graduate research