Software

Name Description Binary Source GPL Implementation
BioLayout Biological Network Visualisation and Analysis X     Java 1.4
BioLayout Express 3D Biological Network Visualisation and Analysis X X X Java 1.5, OpenGL
CAST Low-complexity sequence filter X X   ANSI C
GeneRAGE Protein Sequence Clustering and Domain Decomposition X     ANSI C
miRanda MicroRNA Target Detection in 3' UTRs X X X gcc/autoconf
MCL Markov Clustering X X X gcc/autoconf
Sylamer Analysis of enrichment or depletion of motifs and words in ordered genelists X X X gcc/autoconf (Java 1.5 GUI)
Kraken Quality control and analysis of high-throughput sequence data X X X C, R, perl

Databases and web services

Name Description URL
MicroCosm Targets microRNA Sequences, Registry and Targets http://www.ebi.ac.uk/enright-srv/microcosm/htdocs/targets/
SylArray Automated online analysis of miRNA seed enrichment http://www.ebi.ac.uk/enright-srv/sylarray
MapMi Automated mapping and analysis of miRNA sequences across genomes http://www.ebi.ac.uk/enright-srv/MapMi