Name: Stephen Turner
Type: User
Company: @formbio
Bio: Bioinformatician, data scientist, principal scientist at Colossal Biosciences / Form Bio
Twitter: strnr
Location: Charlottesville, VA
Blog: http://StephenTurner.us
Stephen Turner's Projects
An variant calling-themed 2048 clone
Adapters for trimming
Alignment extraction
Alpine Linux image with R, a subset of Tidyverse packages, and domain-specific tools for genomic data manipulation and analysis.
Program for analysing NGS data.
R data package for annotating/converting Gene IDs
Historic Tale Construction Kit - opensource and customizable version !
Conda recipes for the bioconda channel.
Retrieve and summarize bioRxiv preprints with a local LLM using ollama
https://stephenturner.github.io/bioseq-js
A tool for semi-automatic cell type annotation
Forensic Y-SNP analysis beyond SNaPshot: High-resolution Y-chromosomal haplogrouping from low quality and quantity DNA using Ion AmpliSeq and targeted massively parallel sequencing
This repo provides tools to convert ClinVar data into a tab-delimited flat file, and also provides that resulting tab-delimited flat file.
Coverage / read count calculator for sequencing experiments
Projections of COVID-19, in standardized format
Generate CSV files with fake data from the command line
Tutorial on organizing data in spreadsheets.
Random programming notes and orphan scripts
Model and predict short DNA sequence features with neural networks
:package: :whale: Dockerfiles and documentation on tools for public health bioinformatics
Source to app.diagrams.net
A webpage for teaching that lets you make a dataset by clicking in a blank scatterplot
Application to assign secondary structure to proteins
CSTE DSTT RMarkdown demo
Demonstration of a Shiny app that queries a duckdb database holding the Palmer Penguins data. The app's code was generated with a simple prompt to ChatGPT.
Evolutionary Scale Modeling (esm): Pretrained language models for proteins