hgv_add_scores

hgv_add_scores computes interspecies conservation scores from genomic data to support evolutionary and functional genomics analyses.


Key Features:

  • Interspecies Conservation Analysis: Calculates conservation scores across different species to identify conserved genetic elements.
  • Integration with Galaxy Project: Integrates with the Galaxy Project for use within Galaxy workflows.
  • Provenance and Reproducibility: Automatically records analytical steps and action tracking to ensure transparency and reproducibility of analyses.
  • Scalability for Biomedical Research: Processes large-scale genomic datasets typical of next-generation DNA sequencing studies.

Scientific Applications:

  • Functional Genomics: Identifies conserved regions to prioritize genes and regulatory elements with likely functional significance.
  • Evolutionary Biology: Assesses genetic conservation across species to inform phylogenetic and comparative analyses.
  • Disease Research: Highlights conserved genes and regions that may indicate targets or mechanisms relevant to disease.

Methodology:

Employs advanced computational algorithms to analyze genomic data obtained from next-generation DNA sequencing, integrates with the Galaxy Project, and records analytical steps for reproducibility and transparency.

Topics

Collections

Details

Maturity:
Mature
Tool Type:
web application
Operating Systems:
Linux, Windows, Mac
Added:
12/19/2016
Last Updated:
11/25/2024

Operations

Data Inputs & Outputs

Publications

Mareuil F, Doppelt-Azeroual O, Ménager H. A public Galaxy platform at Pasteur used as an execution engine for web services. Unknown Journal. 2017. doi:10.7490/f1000research.1114334.1.

Siepel A, Pollard KS, Haussler D. New Methods for Detecting Lineage-Specific Selection. Lecture Notes in Computer Science. 2006. doi:10.1007/11732990_17.

Afgan E, Baker D, van den Beek M, Blankenberg D, Bouvier D, Čech M, Chilton J, Clements D, Coraor N, Eberhard C, Grüning B, Guerler A, Hillman-Jackson J, Von Kuster G, Rasche E, Soranzo N, Turaga N, Taylor J, Nekrutenko A, Goecks J. The Galaxy platform for accessible, reproducible and collaborative biomedical analyses: 2016 update. Nucleic Acids Research. 2016;44(W1):W3-W10. doi:10.1093/nar/gkw343. PMID:27137889. PMCID:PMC4987906.

Documentation

Links