GO-PCA |version| User Manual ============================ .. "**Exploring Gene Expression Data Using Prior Knowledge** .. figure:: /_static/gopca.png :width: 400 px :align: right Detail from a GO-PCA *signature plot*. This is the user manual for `GO-PCA`__, a **free and open-source Python implementation** of the eponymous `method`__ for exploring gene expression data using prior knowledge. __ go_pca_ __ go_pca_paper_ .. _go_pca: https://github.com/flo-compbio/gopca Contents -------- .. toctree:: :maxdepth: 2 :includehidden: Introduction Installation Obtaining Gene Sets running The GO-PCA Python API The GO-PCA Command-line interface Citing GO-PCA License .. note:: This manual uses "*GO-PCA*", in *italics*, to specifically reference the general methodology described in `Wagner (2015)`__. In all other cases, "GO-PCA" is meant to reference the Python software documented here. __ go_pca_paper_ .. #rubric:: Recently Updated: * 2/15/2016: Expanded documentation on obtaining gene sets (see :doc:`gene_sets`) .. _go_pca_paper: https://dx.doi.org/10.1371/journal.pone.0143196 .. GO-PCA Demos License .. intro Home tutorial Modules autodoc .. "Indices and tables ================== * :ref:`genindex` * :ref:`search` .. "* :ref:`modindex`