kdm9

Postdoctoral Fellow in Plant-pathogen Evolutionary Genomics. Consultant in Genomics/Bioinformatics/Ecology. Formerly at ANU, Canberra

Max Planck Institute for Biology TübingenTübingen, DE

Pinned Repositories

Acanthophis
A comprehensive, opinionated plant metagenomics and variant calling pipeline in Snakemake
Language:TeX9 1 162
axe
Rapid competitive read demulitplexer. Made with tries.
Language:C24 4 155
blindschleiche
31 bioinformatics utilities in a trenchcoat
Language:Python5 2 01
clogged
Tiny, configurable, pretty C logging library
Language:C6 1 00
hail
Hail: extract lines from a file, a la `head -n x | tail -n y`
Language:C9 2 01
kWIP
De novo estimates of genetic relatedness from next-gen sequencing data
Language:C++46 10 263
NVTK
Tools for managing natural variation collections
Language:Python5 1 01
seqhax
Small sequence analysis tools that don't deserve their own repos.
Language:C8 1 10
SRApy
SRA python tools
Language:Python10 3 06
bash_kernel
A bash kernel for IPython
Language:Python719 26 109142

kdm9's Repositories

kdm9/Acanthophis
A comprehensive, opinionated plant metagenomics and variant calling pipeline in Snakemake
Language:TeX9 1 162
kdm9/seqhax
Small sequence analysis tools that don't deserve their own repos.
Language:C8 1 10
kdm9/blindschleiche
31 bioinformatics utilities in a trenchcoat
Language:Python5 2 01
kdm9/NVTK
Tools for managing natural variation collections
Language:Python5 1 01
kdm9/snakemake_executor_plugin_mpcdf
snakemake_executor_plugin_mpcdf
Language:Python2 1 0
kdm9/goleft
goleft is a collection of bioinformatics tools distributed under MIT license in a single static binary
Language:Go1 0 0
kdm9/Augustus
Genome annotation with AUGUSTUS
Language:C++0 0
kdm9/bash_kernel
A bash kernel for IPython
Language:Python0 0
kdm9/bfx-containers
Language:Dockerfile1 0
kdm9/bioconda-recipes
Conda recipes for the bioconda channel.
Language:Shell0 0
kdm9/birdnet-labeller
Generates an Audacity label file via ebird's Birdnet
Language:Python1 0
kdm9/caddy-s3-proxy
s3 proxy plugin for caddy
Language:Go0 0
kdm9/dysgu
Toolkit for calling structural variants using short or long reads
Language:Cython0 0
kdm9/ebio-snakemake-profile
Language:Python1 0
kdm9/kdm9.R
Language:R1 0
kdm9/lab3d
Various custom labware, 3d prints, etc.
Language:OpenSCAD
kdm9/LiftOn
🚀 LiftOn: Accurate annotation mapping for GFF/GTF across assemblies
Language:Python0 0
kdm9/MISC3D
Misc 3d designs
Language:OpenSCAD
kdm9/paco_ot2
Language:Python1 0
kdm9/rab
1 0
kdm9/raugraf
Language:Python1 0
kdm9/samtools
Language:C1 0
kdm9/seqchk
Language:Python
kdm9/snakemake-interface-executor-plugins
This package provides a stable interface for interactions between Snakemake and its executor plugins.
Language:Python0 0
kdm9/static_samtools_bcftools
Static binaries for Samtools and BCFtools
Language:Dockerfile
kdm9/tkdm
Language:Python1 0
kdm9/trears
Language:OpenSCAD1 0
kdm9/vcf2gwas.snk
Language:Shell
kdm9/weigel-ot2ools
Opentron tools from abt6
Language:Python
kdm9/wfmash
base-accurate DNA sequence alignments using WFA and mashmap3