colindaven Goto Github PK
Name: Colin Davenport
Type: User
Bio: Bioinformatician at KWS SAAT SE. Previously PhD and Postdoc/Staff scientist positions at Hannover Medical School. Nextflow, bioinformatics, metagenomics
Location: Germany
Colin Davenport's Projects
16s-dada2
Snakemake pipeline for amplicon sequencing using dada2
aicontrol
Repository for AIControl project
ampliseq
16S rRNA amplicon sequencing analysis workflow using QIIME2
ansible-galaxy-extras
Ansible roles to configure assorted compontents for an Ubuntu VM or container configured with https://github.com/galaxyproject/ansible-galaxy with production services including nginx, uwsgi, supervisor, protftp, and slurm.
ansible-galaxy-os
An Ansible role is for configuring the base operating system useful for running Galaxy.
assembly_polishing_racon_medaka
Slurm-pipeline for polishing assemblys with nanopore reads
awesome-hic
Awesome list of HiC data analysing tools
awesome-microbes
List of computational resources for analyzing microbial sequencing data.
awesome-nanopore
A curated list of awesome nanopore analysis tools.
awesome-nextflow
A curated list of nextflow based pipelines
awesome-pangenomes
A list of software for pangenomics
awesome-sysadmin
A curated list of amazingly awesome open source sysadmin resources inspired by Awesome PHP.
bam-readcount
count DNA sequence reads in BAM files
bigly
a pileup library that embraces the huge
bioconda-recipes
Conda recipes for the bioconda channel.
bionitio-rust
Demonstrating best practices for bioinformatics command line tools
blacklister
Improve your metagenomic reference sequence: Simple adapter and contamination FASTA masking using bowtie2 and bedtools
blast-example
A basic blast pipeline using nextflow
cite-seq-count
A tool that allows to get UMI counts from a single cell protein assay
containerd
An open and reliable container runtime
dge
Nextflow pipeline that runs DESeq2 on data processed with the nextflow RNAseq pipeline
differentialabundance
Differential abundance analysis for feature/ observation matrices from platforms such as RNA-seq
docker-genomic-analysis
Basic docker image for ad-hoc genomic analyses
galaxy-hub
Galaxy Community Hub
galaxy-rna-seq
:whale::bar_chart::books: Galaxy Docker Image to analyse RNA-Seq data
galaxy-rna-workbench
Galaxy RNA workbench
galaxykickstart
Ansible playbooks for Galaxy Server deployment
genmap
GenMap - Fast and Exact Computation of Genome Mappability
genome_assembly_tools
List of genome assembly tools
genometa
The shotgun metagenome analyzer genometa.
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