Several Bioinformatics applications are accessible either through a web interface or through commandline on the ILRI HPC server. Several of these are High Performance Computing (Parallel LAM/MPI) implementations. Jobs of over ten (10) minutes duration must be submitted to the queues rather than run in the background or interactively on the HPC server.
| Sequence analysis |
| Artemis |
Genome viewer and annotation tool |
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| ACT |
ACT (Artemis Comparison Tool) is a DNA sequence comparison viewer |
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Interproscan
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A tool that combines different protein signature recognition methods into one resource |
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| EMBOSS |
The European Molecular Biology Open Software Suite |
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| wEMBOSS |
The European Molecular Biology Open Software Suite |
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| Primer3 |
Primer design |
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| SignalP |
Predicts the presence and location of signal peptide cleavage sites in amino acid sequences |
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| STADEN |
Is a sequence handling and analysis software package for processing the data for large scale sequencing projects |
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| Similarity Searching |
| Paracel Blast |
An enhanced version of NCBI BLAST |
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| FASTA |
Find regions of local or global similarity between Protein or DNA sequences, either by searching Protein or DNA databases |
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| Pathogen Profiling Pipeline |
Facilitates the analysis, reporting and data management aspects of large-scale pathigen discovery projects. |
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| Evolutionary analysis |
| IDEA |
Interactive Dsiplay for Evolutionary Analysis |
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| Genome annotation |
| DIYA |
Do It Yourself Annotator |
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