Nucleic acid sequence analysis manual#
Please refer to iLearnPlus manual for detailed usage.
Nucleic acid sequence analysis install#
Download and install the anaconda platform. The software can be freely downloaded from. For convenience, we strongly recommended users to install the Anaconda Python environment in your local computer. Prior to installing and running iLearnPlus, all the dependencies should be installed in the Python environment, including sys, os, re, PyQt5, qdarkstyle, numpy (1.18.5), pandas (1.0.5), threading, sip, datetime, platform, pickle, copy, scikit-learn (0.23.1), math, scipy (1.5.0), collections, itertools, torch (≥1.3.1), lightgbm (2.3.1), xgboost (1.0.2), matplotlib (3.1.1), seaborn, joblib, warnings, random, multiprocessing and time. ILearnPlus is an open-source Python-based toolkit, which operates in the Python environment (Python version 3.6 or above) and can run on multiple operating systems (such as Windows, Mac and Linux). Methodsįour major modules, including iLearnPlus-Basic, iLearnPlus-Estimator, iLearnPlus-AutoML, and iLearnPlus-LoadModel, are provided in iLearnPlus for biologists and bioinformaticians to conduct customizable sequence-based feature engineering and analysis, machine-learning algorithm construction, performance assessment, statistical analysis, and data visualization, without additional programming. The iLearnPlus-Basic module is online accessible at. iLearnPlus is an open-source platform for academic purposes and is available at. In addition, the friendly GUI (Graphical User Interface) of iLearnPlus is available to biologists to conduct their analyses smoothly, significantly increasing the effectiveness and user experience compared to the existing pipelines. iLearnPlus integrates 21 machine-learning algorithms (including 12 conventional classification algorithms, two ensemble-learning frameworks and seven deep-learning approaches) and 19 major sequence encoding schemes (in total 147 feature descriptors), outnumbering all the current web servers and stand-alone tools for biological sequence analysis, to the best of our knowledge. ILearnPlus is the first machine-learning platform with both graphical- and web-based user interface that enables the construction of automated machine-learning pipelines for computational analysis and predictions using nucleic acid and protein sequences. ILearnPlus: a comprehensive and automated machine-learning platform for nucleic acid and protein sequence analysis, prediction and visualization.
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