Welcome to Chipster
Chipster is a user-friendly analysis software for high-throughput data such as Visium, single-cell and bulk RNA-seq. Chipster provides a web interface to over 500 analysis tools, and the actual analysis jobs run on the server side making use of CSC's computing environment.
If you would like to use Chipster hosted by CSC, you need a user account. Please note that Chipster is also available for local server installation free of charge.
Training:
- 24.-25.1.2024 Single-cell RNA-seq data analysis
- 25.10.2022 Spatial transcriptomics (Visium) data analysis
- 30.6.2021 MOOC Single-cell RNA-seq data analysis using Chipster, instructions on how to get started
News and resources:
- Chipster has moved from https://chipster.rahtiapp.fi to https://chipster.2.rahtiapp.fi. Please update your bookmarks
- ASV-based microbial community analysis using DADA2: Tutorial videos
- Analysis of QuantSeq 3' UMI RNA-seq data enabled
- Chipster introduction video
- Instructions for moving data from Puhti to Chipster
- Video on how to convert tables to Chipster format and create phenodata file
- Lecture videos of advanced single cell RNA-seq data analysis course
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RNA-seq resources:
- Lecture videos
- Step-by-step instructions for differential expression analysis
- RNA-seq data analysis guidebook with Chipster instructions
- Archive
Maintenance:
- Wednesday 20.11.2024 9 - 10 (UTC+2) Chipster service break.
- Thursday 14.11.2024 8:27 - 11:00 (UTC+2) Chipster service was unavailable. Updated 15:40: working again with full capacity.