Bioscience Learning Materials - Services for Research
Learning Materials for Bioscientists
Course materials, eLearning materials, tutorials and webinar recordings for bioscientists.
General skills:
- CSC resources for bio users [webinar recording-CSC resources for bio users] [slides-CSC resources for bio users]
- Using CSC HPC environments efficiently [slides] [tutorials & exercises-Using CSC HPC environments efficiently][Running your first job on Puhti tutorial]
- Biocontainers [course materials-Biocontainers] [-Biocontainerse-learn page][Singularity tutorial]
- Data analysis with R [GitHub page-Data analysis with R]
- Python for Biosciences [course material-Python for Biosciences] [GitHub page-Python for Biosciences]
- Using cPouta cloud for bioinformatics [course materials-cPouta cloud for bioinformatics] [slides-cPouta cloud for bioinformatics] [exercises-cPouta cloud for bioinformatics]
- Python environment in CSC computers [webinar recording-Python environment in CSC computers]
- See also the self-study materials for Introduction to Python and R in our More Python and R study materials onNotebooks
Application focussed:
- Single-cell RNA-seq data analysis [course material-Single-cell RNA-seq data analysis] [video lectures-Single-cell RNA-seq data analysis] [GitHub page-Single-cell RNA-seq data analysis] [e-learn course-Single-cell RNA-seq data analysis]
- RNA-seq data analysis [course material-RNA-seq data analysis ] [RNA-seq analysispipeline]
- Protein modeling with Discovery Studio [course material-Protein modeling with Discovery Studio]
- VirusDetect pipeline [course material-VirusDetect pipeline] [webinar recording-VirusDetect pipeline]
- Variant analysis with GATK [course material-Variant analysis with GATK] [video lectures-Variant analysis with GATK]
- Metagenomics data analysis [course material-Metagenomics data analysis] [video lectures-Metagenomics data analysis]
- Drug discovery: Schrödinger Maestro [Hands on info about Schrödinger Maestro] [Hands on files 1-Schrödinger Maestro] [Hands on files 2-Schrödinger Maestro]
Chipster:
See the course materials and tutorials for Chipster, our user-friendly graphical user interface for NGS analysis in Chipster course materials page! Topics covered include:
- RNA-seq data analysis
- Single cell RNA-seq data analysis
- Virus detection using small RNA-seq
- Community analysis of amplicon sequencing data (16S)
- Detection and annotation of genomic variants
- ChIP-seq data analysis
- Microarray data analysis
Archived training material
These guides below are provided for archival purposes. They may contain outdated instructions and references to software and databases that are no longer available at CSC. For up-to-date information please refer to the software list and the web pages of each software package.
