# solu.uef.fi

Solu (finnish word for Cell) computing server is meant for an interactive computing workloads. In addition to the traditional SSH terminal access the server provides graphical desktop environment that can be used with the [Remote Desktop Connection Protocol](https://en.wikipedia.org/wiki/Remote_Desktop_Protocol).

Server address: **solu.uef.fi**

## System specs

- CPU: 48 Cores (4 x AMD Opteron(tm) Processor 6348)
- RAM: 768 GB DDR3
- OS: CentOS 7 Linux

## Storage

Server is connected to the storage space provided by the [UEF IT Services for Research](https://www.uef.fi/web/tipa/tipa). More information can be found from the [[infrastructure:guides:storage-space|dedicated page]].


## Available reference data set

All the available reference data sets are provided as-is. They are unmodified copies of the original files. 

## iGenomes

URL: [[https://support.illumina.com/sequencing/sequencing_software/igenome.html]]

Following reference genomes can be found from the ** /apps/genomes/iGenomes ** folder.

^Home sapiens ^Version^
|GRCh37                             |   Ensembl       |
|GRCh38                             |   NCBI          |
|GRCh38Decoy                        |   NCBI          |
|hg19                               |   UCSC          |
|hg39                               |   UCSC          |

^Mus musculus ^Version^
|mm9                              |   UCSC       |
|mm10                             |   UCSC       |

^Rattus norvegicus ^Version^
|rn4                              |   UCSC       |

## gnomAD

URL: [[https://gnomad.broadinstitute.org/downloads]]

Following variants can be found from the ** /research/groups/bioinformaticians/gnomAD-hg19-r2.1.1 ** folder.

^Data set ^Version^
|Exome variants (.vcf.bgz, tbi)          |   gnomAD 2.1.1 / hg19       |
|Exome calling regions (.interval list)  |   gnomAD 2.1.1 / hg19       |
|Genome variants (.vcf.bgz, tbi)         |   gnomAD 2.1.1 / hg19       |
|Genome calling regions (.interval list) |   gnomAD 2.1.1 / hg19       |
|Structural variants (.vcf.gz, tbi)      |   gnomAD 2.1.1 / hg19       |

## Applications

System provides various graphical and terminal applications for the researchers.

Additionally to browser, office-suite and text editors the following graphical applications are available:

^Graphical Applications ^Version^
|MATLAB                             |   R2018b            |
|RStudio                            |   3.5.1             |
|RStudio                            |   3.6.0             |
|RStudio-Server                     |   3.6.0             |
|IGV                                |   2.5.2             |

^Other Applications ^Version ^Address^
|[Rstudio-Server](https://www.rstudio.com/products/rstudio/)|   3.6.0|https://solu.uef.fi/rstudio|
|[Singularity Container](https://www.sylabs.io/singularity/)|   3.2.1|             

To see the list of terminal application visit the [available applications](https://bioinformatics.uef.fi/guides/available-applications) web page.