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  • Swiss Ornithological Institute
  • Sempach, Switzerland

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Achievement: QuickdrawAchievement: Pair ExtraordinaireAchievement: YOLOAchievement: Pull Sharkx2Achievement: Arctic Code Vault Contributor

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@odomlab

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  • dra-docker-training Public

    Workshop material for training Docker to make research reproducible

    training docker workshop-materials containerization digital-research-academy
    Python 1 Creative Commons Attribution Share Alike 4.0 International Updated Jan 31, 2025

  • snakemake-wrappers Public

    Forked from snakemake/snakemake-wrappers

    This is the development home of the Snakemake wrapper repository, see

    CAP CDS Updated Jul 24, 2024

  • snakemake-snpmasked-refgenome Public

    Forked from odomlab2/snakemake-snpmasked-refgenome

    Snakemake workflow to inject SNPs from a strain into a the mouse refrence genome and create a cellranger index

    Python Updated Jun 13, 2024

  • snakemake-fileinfo Public

    Snakemake workflow to collect file size and MD5 sum for a list of files

    Python MIT License Updated Jun 13, 2024

  • snakemake-methylanalysis Public

    Post-mapping analysis of DNA methylation sequencing data

    Updated Jun 13, 2024

  • msmc2-prepare Public

    Prepare a VCF for MSMC2 by injecting phased genotypes

    Python GNU General Public License v3.0 Updated Apr 17, 2024

  • dvc-test Public

    Testing DVC

    Updated Apr 12, 2024

  • bioscripts Public

    Bioinformatic helper scripts

    Python MIT License Updated Mar 5, 2024

  • nextflow Public

    Forked from nextflow-io/nextflow

    A DSL for data-driven computational pipelines

    Groovy Apache License 2.0 Updated Jul 5, 2023

  • methylseq Public

    Forked from nf-core/methylseq

    Methylation (Bisulfite-Sequencing) analysis pipeline using Bismark or bwa-meth + MethylDackel

    Nextflow MIT License Updated Jun 14, 2023

  • nf-mapq-stats Public

    Small nextflow pipeline to get MAPQ statistics over genomic windows

    Nextflow Updated May 18, 2023

  • scEpiAge Public

    Forked from EpigenomeClock/scEpiAge
    R Updated May 10, 2023

  • bismark_add_NN_to_contig Public

    Adding NN to short contigs to make bismark work

    Python Updated Jan 23, 2023

  • Panda Public

    Panda is a django implementation for a blogging website.

    Python Updated Aug 29, 2022

  • snakemake Public

    Forked from snakemake/snakemake

    This is the development home of the workflow management system Snakemake. For general information, see

    HTML MIT License Updated Aug 15, 2022

  • dima Public

    Forked from solida-core/dima

    Snakemake pipeline to map DNA datasets to a given reference genome using BWA MEM and Samtools.

    Python GNU General Public License v3.0 Updated Jul 15, 2022

  • R-ecology-lesson Public

    Forked from datacarpentry/R-ecology-lesson

    Data Analysis and Visualization in R for Ecologists

    R Other Updated Sep 30, 2021

  • humanhash-web Public

    A little webserver running on web.py returning a two-word human hash.

    Python Updated Aug 26, 2021

  • ena-upload-cli Public

    Forked from usegalaxy-eu/ena-upload-cli

    ENA upload tool - script your Open Data upload to the European Nucleotide Archive

    Python MIT License Updated Aug 13, 2021

  • libraRMy Public

    R package of lib-common

    R Updated Mar 24, 2021

  • demo-tutorial Public

    R Updated Feb 24, 2021

  • pubmed_url Public

    Get PubMed URLs from a list of paper titles (and authors).

    Shell MIT License Updated Feb 3, 2021

  • molgenis-projects Public

    Forked from marikaris/molgenis-projects

    Repository containing settings, configuration files, and public data for different MOLGENIS project servers

    CSS GNU Lesser General Public License v3.0 Updated Sep 28, 2020

  • lib-common Public

    A repository for common tasks in my daily work.

    R MIT License Updated Jul 27, 2020

  • social_distance Public

    Forked from pkreissel/social_distance

    Use Google Public popularity data to check if people adhere to social distancing

    Python GNU General Public License v2.0 Updated Mar 20, 2020

  • duprates Public

    HTML Updated Mar 5, 2020

  • primerpython Public

    A wrapper for Primer3 to automatically create PCR primers for locus alignments.

    Python 1 MIT License Updated May 23, 2019

  • dstats Public

    An implementation of the D-statistics test for gene flow signal that works on consensus sequences.

    R Updated May 9, 2019

  • teddypi Public

    The TeddyPi pipeline: Transposable Element detection and discovery for Phylogenetic inference

    Python 9 1 MIT License Updated May 7, 2019

  • teddypi-aux Public

    Auxiliary analyses and scripts from the TeddyPi paper

    HTML Updated Apr 26, 2019