Krishnan Lab (@krishnanlab)
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krishnanlab

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Top repositories

1

PecanPy

A fast, parallelized, memory efficient, and cache-optimized Python implementation of node2vec
Python
149
star
2

txt2onto

Code for classifying unstructured text to tissue ontology terms using natural language processing and machine learning.
Python
23
star
3

teaching

Courses & workshops led by members of the Krishnan Lab.
Jupyter Notebook
23
star
4

PyGenePlexus

A network based gene classification library to generate genome wide predictions about genes that are functionally similar to the input gene list.
Python
20
star
5

obnb

A Python toolkit for setting up benchmarking dataset using biomedical networks
Python
20
star
6

RNAseq_coexpression

In-depth analysis of normalization and transformation methods for building coexpression networks from RNA-seq data.
HTML
11
star
7

GenePlexus

Data, results, and code accompanying the manuscript: "Supervised learning is an accurate method for network-based gene classification"
Python
10
star
8

PecanPy_benchmarks

Shell
6
star
9

Expresto

Data, results, and code accompanying the manuscript: "A Flexible, Interpretable, and Accurate Approach for Imputing the Expression of Unmeasured Genes" "
Jupyter Notebook
6
star
10

pydab

A _blazingly fast_ Python package for modifying and converting DAB files
Python
3
star
11

node2vecplus_benchmarks

Python
3
star
12

MCC-F1-Curve-and-Metrics

MCC-F1 curve: a performance evaluation technique for binary classification
Jupyter Notebook
2
star
13

geneplexus-app-v2

GenePlexus App - backend (cloud functions) and frontend
TypeScript
2
star
14

cone

COntext-specific Network Embedding
Python
2
star
15

talks

Slides and materials from talks, workshops, seminars, etc.
2
star
16

obnbench

Benchmarking repository for OBNB
Python
2
star
17

ASD-gene-prediction-Krishnan2016

Weighted Learning on ASD data
Python
1
star
18

txt2onto2.0

Public repo for txt2onto2.0
Python
1
star
19

geneplexus_app

HTML
1
star
20

GenePlexusZoo-Mancusript

Repository Accompanying the manuscript J"oint representation of molecular networks from multiple species improves gene classification"
Jupyter Notebook
1
star
21

chronic-inflammation

Source code for "A network-based approach for isolating the chronic inflammation gene signatures underlying complex diseases towards finding new treatment opportunities"
HTML
1
star