WhichGenes?

WhichGenes is a powerful gene set building tool. It allows the user to extract lists of genes from multiple sources in order to use them for further experiments.

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nextpresso

nextpresso implements a pipeline to perform a complete analysis of RNA-seq data, across four different execution levels:

  1. read quality and contamination checks
  2. read preprocessing through read trimming and/or down-sampling
  3. aligning of reads to the genomic or transcriptomic references and
  4. processing of the obtained alignments to perform the different analysis.

nextpresso has been designed for execution on HPC, scheduled by an SGE system or by a PBS system. Although sequential execution in a single workstation is also allowed.

 
PathJam!

PathJam is a public tool which provides an intuitive and user-friendly framework for biological pathway analysis of human gene lists. This server integrates pathway-related annotations from several public sources (Reactome, KEGG, Biocarta, etc) making easier the understanding of gene lists of interest.

 

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GeneCommittee

GeneCommittee is a web-based interactive tool for giving specific support to the study of the discriminative classification power of custom hypothesis in the form of biological relevant gene sets. Provided with a straightforward and intuitive interface, GeneCommittee is able to render valuable information for diagnostic analyses and clinical management decisions based on systematically evaluating custom hypothesis over different data sets using complementary classifiers, a key aspect in clinical research.

 
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