cmkobel
Microbioinformatics PhD-fellow in the MEMO group at NMBU. Looking for a postdoc position from 2025-04.
Norges MiljΓΈ- & Biovitenskapelige Universitet (NMBU)Brisbane
Pinned Repositories
bioconda-recipes
Conda recipes for the bioconda channel.
Bio326-NMBU-2023
BIO326 Genome sequencing; tools and analysis 2023
CompareM2
π¦ π Microbial genomes-to-report pipeline
DRAM-turnkey
Distilled and Refined Annotation of Metabolism: Turnkey edition with trivial installation. Just provide the data and turn the key.
gBGC
π¦ πͺ Investigating gBGC in Rhizobium leguminosarum
mspipeline1
πͺπ¦ A snakemake wrapper around Nesvilab's FragPipe-CLI. In a perfect world, this pipeline was based on Sage.
pipe19
This is the pipeline that handles SARS-CoV-2 samples from the health sector in Region Midtjylland (Illumina PE)
staged-recipes
A place to submit conda recipes before they become fully fledged conda-forge feedstocks
pappenheim
βοΈπ° Pipeline for sequencing of SARS-CoV-2 on local workstations with realtime (ONT) basecalling
snakemake
This is the development home of the workflow management system Snakemake. For general information, see
cmkobel's Repositories
cmkobel/CompareM2
π¦ π Microbial genomes-to-report pipeline
cmkobel/Bio326-NMBU-2023
BIO326 Genome sequencing; tools and analysis 2023
cmkobel/DRAM-turnkey
Distilled and Refined Annotation of Metabolism: Turnkey edition with trivial installation. Just provide the data and turn the key.
cmkobel/mspipeline1
πͺπ¦ A snakemake wrapper around Nesvilab's FragPipe-CLI. In a perfect world, this pipeline was based on Sage.
cmkobel/10_fragmani
cmkobel/snakemake_template
A template to start out a snakemake project with
cmkobel/tabseq
ππ A tabular sequence format with 4 columns - Or a way to work with fasta-sequences using the R-tidyverse
cmkobel/bioconda-recipes
Conda recipes for the bioconda channel.
cmkobel/cazycarve
cmkobel/cm2_benchmark
ποΈπ§ββοΈ To test the performance and to compare to other tools.
cmkobel/cmkobel
cmkobel/cmkobel.github.io
cmkobel/comparem2-ci
Test battery for CompareM2.
cmkobel/conda_definitions
independent repo for use as submodule in repo snakemake_template
cmkobel/dram_wrapper
WYSIWYW
cmkobel/FragPipe
A cross-platform Graphical User Interface (GUI) for running MSFragger and Philosopher - powered pipeline for comprehensive analysis of shotgun proteomics data
cmkobel/gapseq
Informed prediction and analysis of bacterial metabolic pathways and genome-scale networks
cmkobel/Kobelomics
Kobelomics - Customized bioinformatic pipelines for microbial multi-omics
cmkobel/kofam_scan
CLI tool to annotate genes with KOfam
cmkobel/MS_pipeline2
π¦βοΈTrying again...
cmkobel/org-html-themes
Transform your Org mode files into stunning HTML documents in minutes with our Org mode HTML theme. Elevate your productivity and impress your readers! #orgmode #html #theme #productivity #design
cmkobel/profiles
profiles for use as independent submodule in repository snakemake_template
cmkobel/rumen_eukaryotes
cmkobel/singularity
Singularity has been renamed to Apptainer as part of us moving the project to the Linux Foundation. This repo has been persisted as a snapshot right before the changes.
cmkobel/slurm-utils
A few utilities for use on a SLURM cluster. Added some qnd logging.
cmkobel/smktest
cmkobel/snakemake
This is the development home of the workflow management system Snakemake. For general information, see
cmkobel/staged-recipes
A place to submit conda recipes before they become fully fledged conda-forge feedstocks
cmkobel/test
cmkobel/TkNA_fork