Because of the large size and specialized tools used for analyzing single cell RNA-Seq data, we have amended our system requirements and recommendations for installations with the Single Cell toolkit.
Up to 100,000 cells per analysis
Required
- Linux: Ubuntu® 12.04, Redhat® 61, CentOS® 6, or newer
- CPU: 64-bit 2 GHz quad-core processor
- Memory: 64 GB of RAM
- Local scratch space: None
Storage: 1 TB available for data
Recommended
- Linux: Ubuntu® 12.04, Redhat® 61, CentOS® 6, or newer
- CPU: 64-bit 2 GHz quad-core processor
- Memory: 128 GB of RAM
- Local scratch space: 500 GB with cached or native speeds of 2GB/s or higher
Storage: 1 TB available for data
More than 100,000 cells per analysis
Required
- Linux: Ubuntu® 12.04, Redhat® 61, CentOS® 6, or newer
- CPU: 64-bit 2 GHz quad-core processor
- Memory: 256 GB of RAM
- Local scratch space: 1 TB with cached or native speeds of 2GB/s or higher
Storage: 1 TB available for data
Recommended
- Linux: Ubuntu® 12.04, Redhat® 61, CentOS® 6, or newer
- CPU: 64-bit 2 GHz quad-core processor
- Memory: 512 GB of RAM
- Local scratch space: 1 TB with cached or native speeds of 2GB/s or higher
Storage: 1 TB available for data
For fastest performance:
- Newer generation CPU cores with avx2 or avx-512 are recommended.
- Performance scales proportionality to the number of CPU cores available.
- Hyper thread cores (threads) scales performance for most operations other than principal component analysis.
Optimization tips for Cluster installations
Additional Assistance
If you need additional assistance, please visit our support page to submit a help ticket or find phone numbers for regional support.
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