krishnanlab Goto Github PK

.github

age-sex_signatures_in_humans_code

code for Human pan-body age- and sex-specific molecular phenomena inferred from public transcriptome data using machine learning

asd-gene-prediction-krishnan2016

Weighted Learning on ASD data

chronic-inflammation

Source code for "A network-based approach for isolating the chronic inflammation gene signatures underlying complex diseases towards finding new treatment opportunities"

cone

COntext-specific Network Embedding

ecre_student

Student repository for ECRE workshops and research experience

expresto

Data, results, and code accompanying the manuscript: "A Flexible, Interpretable, and Accurate Approach for Imputing the Expression of Unmeasured Genes" "

gene-plexus

WIP new gene plexus app

geneplexus

Data, results, and code accompanying the manuscript: "Supervised learning is an accurate method for network-based gene classification"

geneplexus-app-v2

GenePlexus App - backend (cloud functions) and frontend

geneplexus_app

geneplexuszoo-mancusript

Repository Accompanying the manuscript J"oint representation of molecular networks from multiple species improves gene classification"

gp-gcp-frontend

This repo will test getting a GitHub page site talk to google cloud

mcc-f1-curve-and-metrics

MCC-F1 curve: a performance evaluation technique for binary classification

networklearningeval

See https://github.com/krishnanlab/obnb

node2vecplus_benchmarks

obnb

A Python toolkit for setting up benchmarking dataset using biomedical networks

obnbench

Benchmarking repository for OBNB

pecanpy

A fast, parallelized, memory efficient, and cache-optimized Python implementation of node2vec

pecanpy_benchmarks

pydab

A _blazingly fast_ Python package for modifying and converting DAB files

pygeneplexus

A network based gene classification library to generate genome wide predictions about genes that are functionally similar to the input gene list.

rnaseq_coexpression

In-depth analysis of normalization and transformation methods for building coexpression networks from RNA-seq data.

simplex

Simplex app

snnomics

Ranking the similarities of omics samples using siamese neural networks

talks

Slides and materials from talks, workshops, seminars, etc.

teaching

Courses & workshops led by members of the Krishnan Lab.

txt2onto

Code for classifying unstructured text to tissue ontology terms using natural language processing and machine learning.

txt2onto2.0

Public repo for txt2onto2.0