mptrsen
High-performance bioinformatician @UniBonn. I am interested in creating tools that facilitate complex genomics analyses.
High Performance Computing & Analytics Lab (HPC/A), University of Bonn, GermanyBonn, Germany
Pinned Repositories
dissertation
XeLaTeX source for my PhD thesis
distats
Calculate distance statistics for an alignment
HaMStRad
Heavily modified version of HaMStR (Ebersberger et al., 2009)
horizontal-TE-transfer
Horizontal transfer of unclassified TEs in insects -- helper scripts and other tools
mobilome
TE annotation pipeline and analysis scripts for the insect mobilome publication by Petersen et al.
myScripts
A bunch of non-generic scripts that I use in my projects
Orthograph
Orthology prediction using a graph-based, reciprocal approach with profile hidden Markov models
scripts
Various scripts for various purposes
snakemake-hpc-teaching-material
trichodes
Snakemake pipeline to infer a phylogeny from genome skimming data
mptrsen's Repositories
mptrsen/Orthograph
Orthology prediction using a graph-based, reciprocal approach with profile hidden Markov models
mptrsen/scripts
Various scripts for various purposes
mptrsen/distats
Calculate distance statistics for an alignment
mptrsen/mobilome
TE annotation pipeline and analysis scripts for the insect mobilome publication by Petersen et al.
mptrsen/dissertation
XeLaTeX source for my PhD thesis
mptrsen/horizontal-TE-transfer
Horizontal transfer of unclassified TEs in insects -- helper scripts and other tools
mptrsen/myScripts
A bunch of non-generic scripts that I use in my projects
mptrsen/samplot
Plot structural variant signals from many BAMs and CRAMs
mptrsen/dotfiles
Files and directories starting with a dot (config files)
mptrsen/snakemake-hpc-teaching-material
mptrsen/trichodes
Snakemake pipeline to infer a phylogeny from genome skimming data
mptrsen/bash-sensible
An attempt at saner Bash defaults
mptrsen/bioconda-recipes
Conda recipes for the bioconda channel.
mptrsen/canu
A single molecule sequence assembler for genomes large and small.
mptrsen/circlator
A tool to circularize genome assemblies
mptrsen/course_2024
Working repository for the fall 2024 course on collaborative software development
mptrsen/dna-seq-gatk-variant-calling
This Snakemake pipeline implements the GATK best-practices workflow
mptrsen/Earth-Biogenome-Project-pilot
Assembly and Annotation workflows for analysing data in the Earth Biogenome Project pilot project.
mptrsen/gatk-variant-calling
Clone of the Snakemake workflow for variant calling with the GATK pipeline
mptrsen/gfalign
Assembly graph read alignment and analysis
mptrsen/iBOTS-Essential-Computer-Skills-For-Researchers
A workshop covering the bash terminal, vscode, git, github, conda, and more.
mptrsen/isONclust
Conda recipe for isONclust, a tool for clustering PacBio Iso-Seq reads, or Oxford Nanopore reads into clusters
mptrsen/kollector
de novo targeted gene assembly
mptrsen/LatexBeamerThemeUniBonnStyle
Latex beamer template in Uni Bonn style.
mptrsen/qmk_firmware
Open-source keyboard firmware for Atmel AVR and Arm USB families
mptrsen/SAT-Assembler
A Scalable and Accurate Targeted Gene Assembly Tool (SAT-Assembler) for Next-Generation Sequencing Data)
mptrsen/snakemake-wrappers
This is the development home of the Snakemake wrapper repository, see
mptrsen/SURVIVOR
Toolset for SV simulation, comparison and filtering
mptrsen/vcf2phylip
Convert SNPs in VCF format to PHYLIP, NEXUS, binary NEXUS, or FASTA alignments for phylogenetic analysis
mptrsen/wesanderson
A Wes Anderson color palette for R