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PecanPy
A fast, parallelized, memory efficient, and cache-optimized Python implementation of node2vectxt2onto
Code for classifying unstructured text to tissue ontology terms using natural language processing and machine learning.teaching
Courses & workshops led by members of the Krishnan Lab.PyGenePlexus
A network based gene classification library to generate genome wide predictions about genes that are functionally similar to the input gene list.obnb
A Python toolkit for setting up benchmarking dataset using biomedical networksRNAseq_coexpression
In-depth analysis of normalization and transformation methods for building coexpression networks from RNA-seq data.GenePlexus
Data, results, and code accompanying the manuscript: "Supervised learning is an accurate method for network-based gene classification"PecanPy_benchmarks
Expresto
Data, results, and code accompanying the manuscript: "A Flexible, Interpretable, and Accurate Approach for Imputing the Expression of Unmeasured Genes" "pydab
A _blazingly fast_ Python package for modifying and converting DAB filesnode2vecplus_benchmarks
MCC-F1-Curve-and-Metrics
MCC-F1 curve: a performance evaluation technique for binary classificationcone
COntext-specific Network Embeddingtalks
Slides and materials from talks, workshops, seminars, etc.obnbench
Benchmarking repository for OBNBASD-gene-prediction-Krishnan2016
Weighted Learning on ASD datatxt2onto2.0
Public repo for txt2onto2.0geneplexus_app
GenePlexusZoo-Mancusript
Repository Accompanying the manuscript J"oint representation of molecular networks from multiple species improves gene classification"chronic-inflammation
Source code for "A network-based approach for isolating the chronic inflammation gene signatures underlying complex diseases towards finding new treatment opportunities"Love Open Source and this site? Check out how you can help us