rhagenson
A bioinfo-magician and synthetic biologist with a heart of cells.
Yale School of MedicineNew Haven, CT
Pinned Repositories
pony-bio
Bioinformatics for the Pony ecosystem
ponyc
Pony is an open-source, actor-model, capabilities-secure, high performance programming language
2019-01-03-UNO
Data Carpentry Genomics Workshop at the Univeristy of Nebraksa Omaha - January 3-4, 2019
allourideas.org
allourideas allows groups to collect and priorize information in an open, democratic, and efficient process.
Awesome-CV
:page_facing_up: Awesome CV is LaTeX template for your outstanding job application
awesome-pony
Curated resources on the pony language
bio-tool-requests
Requests for Bioinformatics tools people want, but nobody has built
muscle
A copy of Robert C. Edgar's MUSCLE aligner
pony-tutorial
:horse: Tutorial for the Pony programming language
rust-bio
This library provides implementations of many algorithms and data structures that are useful for bioinformatics. All provided implementations are rigorously tested via continuous integration.
rhagenson's Repositories
rhagenson/Butte
BoUnds of Time Till Expansion, a computational framework to investigate the SCNA arrival time in the somatic evolution toward the most recent common ancestor of tumor sample(s)
rhagenson/deconstructSigs
deconstructSigs
rhagenson/facets
Algorithm to implement Fraction and Copy number Estimate from Tumor/normal Sequencing.
rhagenson/idris2-tutorial
rhagenson/Long-Read-Proteogenomics
A workflow for enhanced protein isoform detection through integration of long-read RNA-seq and mass spectrometry-based proteomics.
rhagenson/nextflow-gotchas
A collection of unexpected challenges and learnings with nextflow and nf-core.
rhagenson/nf-core_configs
Config files used to define parameters specific to compute environments at different Institutions
rhagenson/quarto-web
Quarto website
rhagenson/rfcs
:horse: RFCs for changes to Pony
rhagenson/sarek
Analysis pipeline to detect germline or somatic variants (pre-processing, variant calling and annotation) from WGS / targeted sequencing
rhagenson/verkko
rhagenson/ziglings
Learn the Zig programming language by fixing tiny broken programs.
rhagenson/Awesome-CV
:page_facing_up: Awesome CV is LaTeX template for your outstanding job application
rhagenson/pony-tutorial
:horse: Tutorial for the Pony programming language
rhagenson/relped
Relatedness Pedigree -- build a pedigree from relatedness
rhagenson/swsc
swsc implements the Sliding-Window Site Characteristics method of ultraconserved elements (UCEs) detailed by 10.1093/molbev/msy069
rhagenson/dhall-lang
Maintainable configuration files
rhagenson/Idris2
A purely functional programming language with first class types
rhagenson/IRFinder
Detecting intron retention from RNA-Seq experiments
rhagenson/ms-thesis
rhagenson/mumdex
MUMdex source code for genome analysis
rhagenson/NE_nCoV_rapid
rhagenson/pony-bio
Bioinformatics for the Pony ecosystem
rhagenson/PSI-Sigma
PSI-Sigma
rhagenson/rscripts
Random R scripts and utilities I have created. May be useful for others, but no guarantee
rhagenson/rust-bio-tools
A set of command line utilities based on Rust-Bio.
rhagenson/sembio-go
Archive of what was once sembio/go
rhagenson/TMB
Tumor Mutational Burden
rhagenson/TwentySecondsCurriculumVitae-LaTex
Write Beautiful Curriculum Vitae in LaTex, that ensures twenty seconds reading.
rhagenson/vscode-zig
Zig language support for VSCode