| Release | Date | Description | Instructions | Download |
| 2.0 | 21.08.2013 | SIMPLEX Server - Virtual Machine | User Manual | download |
| 1.0 | 08.02.2012 | SIMPLEX Server - Virtual Machine | User Manual | download |
| 1.0 | 08.02.2012 | SIMPLEX Client Jar File | User Manual | download |
| 1.0 | 08.02.2012 | Java 6 Supporting Libraries | Documentation | download |
| Description | Download |
| Illumina test data |
testdata_R1.fq.gz testdata_R2.fq.gz |
| SOLiD SE test data | solid_se.zip |
| SOLiD PE test data | solid_pe.zip |
| CCDS |
CCDS.20110907.bed CCDS.20110907.test.bed |
| Name | Description | URL |
| CommonBioCommands | Commands that are used in different pipelines and places | svnsimplex/CommonBioCommands |
| CommonBioJava | Common Java classes for bio analyses | svnsimplex/CommonBioJava |
| TranscriptomePipeline | The actual pipeline | svnsimplex/TranscriptomePipeline |
| JClusterService | Web framework for submitting jobs to a cluster | svnsimplex/JClusterService |