Projects
My work in life science Sweden is quite varied with numerous different projects relating to everything from transcriptomics, pipeline development and statistics. While I cannot share details of on-going NBIS projects due to confidentiality agreements, I here list some of my Open Source projects and contributions.
Open Source projects
- nf-core/spatialtranscriptomics, a Nextflow/nf-core pipeline for analysing spatial transcriptomics data
- nf-core/modules/quartonotebook, a Nextflow/nf-core module for rendering Quarto notebooks.
- A nf-core Quarto template following the nf-core visual identity and commonly used colours for rendering nf-core-themed reports
- seqCAT, an R/Bioconductor package for variant analysis and cell authentication using HTS data
- VarClust, a Python package for variant analyses of single-cell HTS data
- RNA-VC, a Snakemake pipeline for variant analyses of publicly available RNA-seq data
Open Source contributions
- nf-core/modules/spaceranger, a Nextflow/nf-core module for the 10x Genomics Space Ranger software.
