Software

Our staff develops the following software:

XMIPP A suite of image processing programs, primarily aimed at single-particle 3D electron microscopy	Scipion An image processing framework for 3D EM
Agem Anatomic Gene Expression Maping	Pepper A graphical 3D-EM DAS client
3DEM Benchmark A robust computational infrastructure capable of supporting the automatic and standardized benchmarking of image processing applications	OWLViewer A powerful and friendly ontology browser
Conventions It documents whether the map files produced in a particular package are consistent with the 3DEM conventions	3DEM Methods An extensive repository of three-dimensional electron microscopy (3DEM) methods
Genecodis A web-based tool for the ontological analysis of large lists of genes	MarQ An online tool to mine GEO for experiments with similar or opposite gene expression signatures
BioNMF A web-based tool for performing non-negative matrix factorization of biological data	Sent A web-based tool to brings structure and semantics to a list of genes by means of literature analysis
Moara Biological text mining tools	Centrosome DB It contains a set of human genes encoding proteins that are localized in the centrosome
BunwarpJ ImageJ plugin for bidirectional elastic registration of two images	Engene A versatile, web-based exploratory data analysis tool for gene expression data
Colimate A language for automatic Graphic User-Interface generation	SFlexit Superfamily-based flexible fitting

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