HullUni-bioinformatics/Your-Species-In-GenBank

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HullUni-bioinformatics/Your-Species-In-GenBank

HullUni-bioinformatics

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ReproPhylo

Reproducible Phylogenomics

Jupyter Notebook

TE-search-tools

Python wrappers for programs that search for transposable elements

Jupyter Notebook

metaBEAT

Metabarcoding analyses pipeline - metaBarcoding and Environmental DNA Analysis Tool

Nematoda-TE-Evolution

Analysis for the paper "Genetic drift, not life history or RNAi, determine long term evolution of transposable elements"

Jupyter Notebook

Haenfling_et_al_2016

Data processing workflow and supplementary data for Haenfling et al. 2016 - Environmental DNA metabarcoding of lake fish communities reflects long-term data from established survey methods

MIG-Phylogenomics

MIG Meloidogyne species phylogenomics and and ploidy analysis

genomisc-training

Miscellaneous materials (tutorials, exercises, testdata) to develop essential 'survival'-skills in bioinformatics.

ReproPhyloDockerfile

ReproPhyloGalaxy

A Galaxy instance with ReproPhylo tools

Li_et_al_2019_eDNA_fish_monitoring

Data processing workflow and supplementary data for Li et al. 2019 - Ground-truthing of a fish-based environmental DNA metabarcoding method for assessing the quality of lakes

Griffiths_et_al_2020_Fens_eDNA

Data processing workflow and supplementary info for: Griffiths et al. (2020) - Environmental DNA metabarcoding provides enhanced detection of the European eel Anguilla anguilla and fish community structure in pumped river catchments

metabarcode-course

EvoHull bioinformatics and metabarcoding repository

HullUni-bioinformatics.github.io

Szitenberg_et_al_2014

Curated_reference_databases

This repository contains the complete description of how we produced the curated reference databases for the studies in Evolutionary and Environmental Genomics Group (@EvoHull)

Harper_et_al_2018

Jupyter Notebook

Harper_et_al_2020_mustelid_diet_metabarcoding

egrep-2016

Repository for course 'Environmental Genomics Research Projects (egrep)' 2016 @EvoHull

metabarcode-course-2016

Data for 'Reproducible metabarcoding course' 2016 @EvoHull

Harper_et_al_2020_crucian_carp_impact_invertebrates_conventional_molecular_tools

Dockerize

This repository contains contexts for Docker images build for miscellaneous pieces of bioinformatics software.

Handley_et_al_2019

Data processing workflow and supplementary data for Handley et al. 2019 - Temporal and spatial variation in distribution of fish environmental DNA in England’s largest lake

Jupyter Notebook

Li_et_al_2018_eDNA_filtration

Data processing workflow and supplementary data for Li et al. 2018 - The effect of filtration method on the efficiency of environmental DNA capture and quantification via metabarcoding