Hammarn
Ph.D. in Human Evolution from Uppsala University. Currently employed as a Systems Developer at SciLifeLab Data Centre
Uppsala
Pinned Repositories
1MB335
Repository for developing the new labs for 1MB335
AdmixTools
Tools test whether admixture occurred and more
Dockerfiles
A collection of dockerfiles I've made of software
flowcell_parser
Collection of python scripts to parse Illumina (demux with bcl2fastq v2.17+) output
genomics-status
Tornado server for tracking samples at NGI Stockholm
NGI-RNAfusion
Old initial repo of the pipeline, main repo here:
NGI-smRNAseq
Populationsgenomik
Repo for the lab in the courses 1BG508 and 1BG512
Scripts
Miscellaneous scripts, very much WIP and not intended for anyone else to use.
MultiQC
Aggregate results from bioinformatics analyses across many samples into a single report.
Hammarn's Repositories
Hammarn/1MB335
Repository for developing the new labs for 1MB335
Hammarn/NGI-RNAfusion
Old initial repo of the pipeline, main repo here:
Hammarn/Populationsgenomik
Repo for the lab in the courses 1BG508 and 1BG512
Hammarn/NGI-smRNAseq
Hammarn/AdmixTools
Tools test whether admixture occurred and more
Hammarn/Dockerfiles
A collection of dockerfiles I've made of software
Hammarn/flowcell_parser
Collection of python scripts to parse Illumina (demux with bcl2fastq v2.17+) output
Hammarn/genomics-status
Tornado server for tracking samples at NGI Stockholm
Hammarn/Scripts
Miscellaneous scripts, very much WIP and not intended for anyone else to use.
Hammarn/irma-provision
Ansible playbooks for provisioning NGI pipeline and related sw
Hammarn/maxulysse.github.io
My own jekyll personnal website
Hammarn/MultiQC
Aggregate results from bioinformatics analyses across many samples into a single report.
Hammarn/MultiQC_NGI
MultiQC plugin for the National Genomics Infrastructure in Stockholm, Sweden.
Hammarn/MultiQC_TestData
Test data for MultiQC. See https://github.com/ewels/MultiQC
Hammarn/Nextflow_test
Toy repository to replicate bugs
Hammarn/NF_FineStructure
A nextflow wrapper for running FineStructure
Hammarn/NGI-NextflowDocs
Common documentation for National Genomics Infrastructure pipelines built with Nextflow
Hammarn/NGI-RNAseq
RNA Best Practice analysis pipeline, used at the SciLifeLab National Genomics Infrastructure.
Hammarn/ngi_pipeline
Code driving the production pipeline at SciLifeLab
Hammarn/ngi_visualizations
Next-Gen Sequencing Visualisation Scripts.
Hammarn/oneliners_and_scripts
Hammarn/Popolipo
Hammarn/Publications
Simple web-based publications reference database system.
Hammarn/r_stuff
Hammarn/rfmix
RFMIX - Local Ancestry and Admixture Inference Version 2
Hammarn/scilifelab_epps
A collection of Genologics Clarity LIMS EPPs used at Scilifelab.
Hammarn/seek
For finding, sharing and exchanging Data, Models, Simulations and Processes in Science.
Hammarn/standalone_scripts
Repository to store standalone scripts that do not belong to any bigger package or repository
Hammarn/TACA
Tool for the Automation of Cleanup and Analyses
Hammarn/testing
Showing how github works