karkman

University lecturer in microbial bioinformatics. Interested in antibiotic resistance in the environment

University of Helsinki & @AlukeOy Finland

Pinned Repositories

crAssphage_project
Source code for the crAssphage project
Language:TeX44 2 043
GlobalSewage
Data analysis for Global Sewage project
Language:HTML1 1 02
MBDP_Genomics_2022
Course repository for the spring 2022 MBDP genomics course
Language:Shell2 2 010
MBDP_Metagenomics_2022
Course repository for MBDP metagenomics course 2022
Language:Shell0 0 01
MetagenomeCourse2019
Course material for the metagenomics course
Language:Shell42 6 024
Metagenomics2021
Metagenomics course
Language:R7 3 08
MMB-114_Genomics
Whole genome analysis teaching for the course 'MMB-114 Exploratory microbial research - lab course' of the University of Helsinki.
Language:Shell1 0 00
MMB-901_Metagenomics
MMB-901 metagenomics course repository
Language:R0 1 00
Physalia_EnvMetagenomics_2022
Environmental metagenomics, Spring 2022, Physalia Courses
Language:R5 1 03
physalia_metagenomics
Environmental metagenomics, Spring 2021, Physalia Courses
Language:R7 2 06

karkman's Repositories

karkman/MetagenomeCourse2019
Course material for the metagenomics course
Language:Shell42 6 024
karkman/Metagenomics2021
Metagenomics course
Language:R7 3 08
karkman/physalia_metagenomics
Environmental metagenomics, Spring 2021, Physalia Courses
Language:R7 2 06
karkman/Physalia_EnvMetagenomics_2022
Environmental metagenomics, Spring 2022, Physalia Courses
Language:R5 1 03
karkman/Physalia_EnvMetagenomics_2023
Environmental metagenomics, Spring 2023, Physalia Courses
4 2 01
karkman/parse_diamond
A simple script to parse DIAMOND results in to a data frame
Language:Python3 1 01
karkman/MBDP_Genomics_2022
Course repository for the spring 2022 MBDP genomics course
Language:Shell2 2 010
karkman/gff_parser
Parser to add external gene calls and functional annotation from Prokka to Anvi'o.
Language:Python1 2 75
karkman/GlobalSewage
Data analysis for Global Sewage project
Language:HTML1 1 02
karkman/MMB-114_Genomics
Whole genome analysis teaching for the course 'MMB-114 Exploratory microbial research - lab course' of the University of Helsinki.
Language:Shell1 0 00
karkman/MBDP_Metagenomics_2022
Course repository for MBDP metagenomics course 2022
Language:Shell0 0 01
karkman/MMB-117_EnvironmentalMicrobiology
Course repository for Environmental microbiology course (MMB-117) at the University of Helsinki.
Language:Jupyter Notebook0 1 00
karkman/MMB-901_Metagenomics
MMB-901 metagenomics course repository
Language:R0 1 00
karkman/anvio
An analysis and visualization platform for 'omics data
Language:Python0 0
karkman/anvio.org
The anvi'o community web page
Language:HTML0 0
karkman/assemble-all-ena
Language:Python0 0
karkman/binder_demo
Demo binder repo
Language:Jupyter Notebook1 0
karkman/binder_rstudio
Rstudio binder for courses
Language:R1 0
karkman/EDAR7
Poster for EDAR7 conference
karkman/epicPCR_analysis
Instructions and examples for how to analyze epicPCR data
Language:HTML0 0
karkman/fundamentals-machine-learning
Git repo for the Fundamentals of Machine Learning Course
Language:Jupyter Notebook0 0
karkman/LUKE_demo
Demo workflow for 16S rRNA data analysis
Language:R1 0
karkman/MicrobiomeSummerSchool2024
Short assembly demo for Nordic Summer School on Computational Microbiome Research 2024
karkman/MMB-117
Environmental microbiology course
0 0
karkman/Pangenomics_demo
Repository for pangenomics teaching demonstration
Language:Jupyter Notebook
karkman/pb-metagenomics-tools
pb-metagenomics-tools
Language:HTML0 0
karkman/test_public
public repo
0 0
karkman/test_travis
Testing Travis CI
Language:Python1 11
karkman/TidyTuesday
Data wrangling with #TidyTuesday data sets
Language:HTML1 0
karkman/word-count
Language:Python1 0