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analysis.rst

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  1. Analysis/Annotation
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  2. ===================
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  4. The following modules provide support for loading annotation or analysis' into Chado and displaying them on Tripal pages.
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  6. Tripal Analysis Expression
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  7. --------------------------
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  9. A module for loading, annotating, and visualizing NCBI Biomaterials and expression data.
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  11. `Documentation <https://github.com/tripal/tripal_analysis_expression/blob/master/README.md>`__
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  12. `Repository <https://github.com/tripal/tripal_analysis_expression>`__
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  14. Tripal Analysis Blast
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  15. ---------------------
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  17. This module extends the Tripal Analysis Module and provides a method for loading XML results from the NCBI blast program. Blast results appear on each feature page.
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  19. `Documentation <https://tripal.readthedocs.io/en/latest/user_guide/example_genomics/func_annots/blast.html>`__
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  20. `Repository <https://github.com/tripal/tripal_analysis_blast>`__
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  22. Tripal Analysis KEGG
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  23. --------------------
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  25. This module provides a method for loading of KEGG ortholog assignments derived from the KEGG Automated Annotation Server (KAAS). KEGG assignments appear on each feature page, and a full KEGG report is available for browsing results once uploaded.
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  27. `Repository <https://github.com/tripal/tripal_analysis_kegg>`__
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  29. Tripal Analysis Interpro
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  30. ------------------------
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  32. This module provides a method for loading XML results from the InterProScan program. The module can load InterProScan XML v4 or InterProScan XML v5 generated from the command-line or web-based versions of InterProScan. Additionally, GO terms mapped by InterProScan can optionally be assigned to features.
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  34. `Documentation <https://tripal.readthedocs.io/en/latest/user_guide/example_genomics/func_annots/interpro.html>`__
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  35. `Repository <https://github.com/tripal/tripal_analysis_interpro>`__
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  37. Tripal CV-Xray
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  38. --------------
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  40. Tripal CV-Xray maps content annotations onto controlled vocabulary trees.  The end result is a browseable CV field that lets users explore ontologies and find associated content.
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  42. `Documentation <https://github.com/statonlab/tripal_cv_xray/blob/master/README.md>`__
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  43. `Repository <https://github.com/statonlab/tripal_cv_xray>`__
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