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annorxiver

Annotating bioRxiv preprints in an automated fashion

annorxiver_manuscript

This manuscript covers the annorxiver project.

bayesian_changepoint_detection

Methods to get the probability of a changepoint in a time series.

biopython

Official git repository for Biopython (converted from CVS)

biovectors

Detecting Biomedical Relationships using Word2vec On Pubtator Central

catalog

Catalog of made with Manubot manuscripts

connectivity-search-manuscript

Manuscript describing Hetnet Connectivity Search

cook-import

A command line tool to import recipes into Cooklang format

covid19-review

A collaborative review of the emerging COVID-19 literature. Join the chat here:

danich1.github.io

Personal webiste for David Nicholson

fuzzy-c-means

A simple python implementation of Fuzzy C-means algorithm.

greenelab.com

The website source code for greenelab.com

knowledge-graph-review

A literature review for constructing and using knowledge graphs in a biomedical setting.

metal

Snorkel MeTaL: A framework for training models with multi-task weak supervision

non-coding-variation-browser

numbskull

Numba-based version of DimmWitted Gibbs sampler

onboarding

Onboarding materials for the Greene Lab

pdfminer.six

Community maintained fork of pdfminer

plydata

A grammar for data manipulation in Python

preprint-similarity-search

Journal recommendation dash app for the annorxiver project

pubtator

Retrieve and process PubTator annotations

readables

reporpoise

VoightLab web tool for drug discovery.

saucie

snorkel

A training data creation and management system focused on information extraction

snorkeling

Extracting when a compound treats a disease from the literature with Snorkel

snorkeling-full-text

This is an upgraded version of the original snorkeling project

spider-pipeline

This is the meme-mast pipeline runner for identifying conserved motifs and cassettes in proteomic data.

surpriver

Find big moving stocks before they move using machine learning and anomaly detection

text_mined_hetnet_manuscript

This manscript is on using snorkel to extract Heterogeneous Relationships from Pubmed Abstracts.