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ugtm: Generative Topographic Mapping with Python.\n\nLink to the package documentation: http://ugtm.readthedocs.io/en/latest/\n\nGTM (Generative Topographic Mapping) is a dimensionality reduction algorithm (as t-SNE, LLE, etc) created by Bishop et al. (https://www.microsoft.com/en-us/research/wp-content/uploads/1998/01/bishop-gtm-ncomp-98.pdf) and a probabilistic counterpart of Kohonen maps.\n\nugtm is a python package implementing GTM and GTM prediction algorithms. ugtm contains the core functions and runGTM.py (in bin directory) is an easy-to-use program. The kernel version of the algorithm (kGTM) is also implemented. You can also generate regression or classification maps, or evaluate the predictive accuracy (classification) or RMSE/R2 (regression) in repeated cross-validation experiments.\n\n## Install ugtm\n\nSimple installation:\n- pip install ugtm\n\nIf you get error messages, try upgrading packages:\n- pip install --upgrade pip numpy scikit-learn matplotlib scipy mpld3 jinja2\n- sudo pip install --upgrade pip numpy scikit-learn matplotlib scipy mpld3 jinja2\n\nIf you have problems with anaconda packages, try to create a virtual env called \"p2\" for python 2.7.14:\n- conda create -n p2 python=2.7.14 numpy=1.14.5 scikit-learn=0.20 matplotlib=2.2.2 scipy=0.19.1 mpld3=0.3 jinja2=2.10\n- source activate p2\n- pip install ugtm\n\nOr p3 for python 3.6.6:\n- conda create -n p3 python=3.6.6 numpy=1.14.5 scikit-learn=0.20 matplotlib=2.2.2 scipy=0.19.1 mpld3=0.3 jinja2=2.10\n- source activate p3\n- pip install ugtm\n\n\n## Documentation\n\n[Readthedocs](https://ugtm.readthedocs.io/)\n\n\n## Prerequisites\n\nPython 2.7 or + (tested on Python 3.4.6 and Python 2.7.14)\n\nand following packages:\n- scikit-learn\u003e=0.20\n- numpy\u003e=1.14.5\n- matplotlib\u003e=2.2.2\n- scipy\u003e=0.19.1\n- mpld3\u003e=0.3\n- jinja2\u003e=2.10\n\n## Citing ugtm\n\nCite ugtm version and the [following paper](https://openresearchsoftware.metajnl.com/articles/10.5334/jors.235/):\n\n```\n@ARTICLE{Gaspar2018-qt,\n  title   = \"ugtm: A Python Package for Data Modeling and Visualization Using\n             Generative Topographic Mapping\",\n  author  = \"Gaspar, H{\\'e}l{\\'e}na Alexandra\",\n  journal = \"Journal of Open Research Software\",\n  volume  =  6,\n  pages   = \"215\",\n  month   =  dec,\n  year    =  2018\n}\n```\n\n## Principal author / admin\n\nHéléna A. Gaspar, hagax8@gmail.com, https://github.com/hagax8\n\n\n","project_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fhagax8%2Fugtm","html_url":"https://awesome.ecosyste.ms/projects/github.com%2Fhagax8%2Fugtm","lists_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fhagax8%2Fugtm/lists"}