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brassica-snps

Ontology-mediated refinement of bulk segregant analyses

brassicaceae-hybseq-pipeline

browbrow

Brownian motion in a browser window

butterflies

Data and scripts for a research collaboration with the Vlinderstichting

changing-invaders

Scripts and config files for assembly and SNP design of genomics of Polynesian rats

cluster-pipeline

454 sequence clustering and identification

cobra

comp-genome-mammals-cmah

Repository for the comparative analysis of CMAH inactivation in Mammalian genomes

coursecomparativemethods

Examples of application of comparative methods in R

crs-data-harvester

Tool for automated direct queries on the Naturalis CRS database

custom-databases-dna-sequences

Bioinformatics project B19017-555

cwl-master-project

Source code in Common Workflow Language for sharing pipelines between Rijk Zwaan and Naturalis

de-novo-assembly

Contains shell scripts with example usage of NGS assembly tools for mid-size (insect) genomes.

dnabert_s

DNABERT_S: Learning Species-Aware DNA Embedding with Genome Foundation Models

docker-treepl

Dockerfile for treePL

domesticability-analysis

A concise page with links to various Rmd scripts relevant to the prediction of domesticability in ungulates

dwcaconfig

DWCA Configuratie bestanden om data te downloaden uit ES (NBA)

es-client

Java utility library for working with Elasticsearch

extract_exons

Bash / python scripts for extracting exons from genomic sequences

fastq-simple-tools

Simple utility scripts for operating on FASTQ files

find_snps

Compare two sets of mapping assemblies and return a list of SNPs (or InDels) that can distinguish the two sets.

floradatamining

Source code and data for pilot on FotG data mining and comparative analysis

florml

foram-assembly

Genome assembly of a foram holobiont from metagenome data

foram-assembly-annotation

Scripts and config file for the assembly and annotation of foram genomes

formicid

CNN-based image classification of AntWeb images

galaxy-installation

Installation of Galaxy v.19.01 on Ubuntu 18.04 LTS (OpenStack Naturalis)

galaxy-pipeline

Wrappers, scripts and configuration files for running cluster and identification analysis on a Galaxy installation.

galaxy-pipeline-hybseq

End-to-end implementation of HybSeq analysis in Naturalis's Galaxy portal

galaxy-tool-add-blast-to-otutable