A collaboratively written review paper on deep learning, genomics, and precision medicine

:scroll: :tada: Automated reporting of objects in R

papaja (Preparing APA Journal Articles) is an R package that provides document formats to produce complete APA manuscripts from RMarkdown-files (PDF and Word documents) and helper functions that facilitate reporting statistics, tables, and plots.

An R-tool for comprehensive science mapping analysis. A package for quantitative research in scientometrics and bibliometrics.

Clone me to create your Manubot manuscript

Minimalist LaTeX template for academic papers

Ten Quick Tips for Deep Learning in Biology

:books: Virtual Intelligent Publishing Assistant (Vipa): A journal management and publishing software

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

Extracting and quantifying graphical representations of river and delta channel networks from binary masks

A checklist to help you avoid all those minor errors when submitting a scientific manuscript

AutoLayoutKit in pure Swift.

Data and code related to the paper "ADAGE-Based Integration of Publicly Available Pseudomonas aeruginosa..." Jie Tan, et al · mSystems · 2016

A repository to practice contributing to a Manubot manuscript

:notebook: Non-parametric Bayesian Inference for Conservation Decisions

Delineating watershed basins and computing attribute statistics using Google Earth Engine

Manuscript for the Sci-Hub Coverage Study

An example of using make for a data analysis project

TIGS (Tumor Immunogenicity Score) project https://doi.org/10.7554/eLife.49020

Collection of scripts to download digitized manuscripts from various online libraries

A pandoc-based layout workflow for scholarly journals. It relies on markdown, YAML and pandoc to obtain multiple publication formats

Code for the empty droplet and cell detection project from the HCA Hackathon.

#Mentor4Nepal Initiative is for recent graduates and early career professionals focusing on the enhancement of one’s skill set, support for a research project, and a collaborative publication.

Werthmüller, D., R. Rochlitz, O. Castillo-Reyes, and L. Heagy, 2021, Towards an open-source landscape for 3-D CSEM modelling: Geophysical Journal International, 227(1), 644--659

Code and manuscript files for Aaron and Karsten's deconvolution paper.

SNP genotyping in polyploids

A manuscript exploring the effects of taxonomic bias on microbiome differential-abundance analysis.

:notebook: Pretty Darn Good Control: applications in optimal control

A simple book manuscript in latex designed for export to Word via pandoc

Using knowledge-guided machine learning to assess patterns of areal change in waterbodies across the contiguous US