Discover mooreryan/rhode_island_16s Open Source project

Super snazzy online phylogenetic tree viewer with automatic customization using simple, tab-separated text files.

iroki

HTML

markdown-dnd-images

Drag and drop images directly into markdown-mode emacs buffer

Emacs Lisp

gleam_qcheck

QuickCheck-inspired property testing with integrated shrinking for Gleam

NOTE: The iroki command line tool is no longer maintained. Please see: https://github.com/mooreryan/iroki

iroki_cli

Type-safe (string) formatting for Gleam

valgrind_docker

Valgrind in Docker

Makefile

gleam_fmt

PASV -- Protein active site validation

pasv

lisby

Lisp interpreter in Ruby

Multi-genome amino acid similarity pipeline

aai

CLI program to help you manage your lab notebook with git and git annex

computational_lab_notebooks

A pull-based XML parser for the Gleam programming language

gleam_xmlm

A C and Python implementation of latent strain analysis for eigengenome partitioning.

eigengenomes

midpoint-root

Simple ETE script for midpoint rooting trees

Python

bio_io

An OCaml library that provides programmatic access to common file formats used in bioinformatics like FASTA files.

Parse fasta files in Clojure

clj-parse-fasta

Reproducible taxonomic classification for Zetaproteobacteria and other poorly resolved taxa.

ZetaHunter

A fast implementation of DivNet

divnet-rs

Rust

IdentiBin

I don't even know what it does!

Easy-peasy fasta file parsing

zach

¡¡ZACH ATTACK!!

parse_fasta

cljs_reagent_react_vis_blog_materials

Latent semantic analysis pipeline for genomes and metagenomes

lsa_for_genomes

A small plot example using OCaml, Js_of_ocaml, Brr, and Vg

ocaml_vg_example_plot

Standard qc for paired end illumina libraries

Dereplicate long sequences

derep_seqs

InteinFinder

InteinFinder: automated intein detection from large protein datasets

Fast compositional data analysis

coda

C++

bio_illumina_mmgs

Docker image for analyzing Illumina metagenomes

Dockerfile

featuretable

mmseqs_iterator

Make snazzy plots in your terminal!

ascii_plots

Rust

GBParsy

Source and wiki for GBParsy from Google Code Archive

chopyk_neighborhoods

Chop Chop Chopyks!

Demonstration of MGS bias and its effect on community structure

mgs_bias_app

Coloring and editing newick files for use in FigTree viewer

color_tree

CERISE: ClustEr RestrIcted homology SEarch

cerise

Pipeline to get viral genomes and info.

get_viral_genomes

A fork of redsvd (https://code.google.com/archive/p/redsvd/)

aoh_cv_website

AOH CV Website

SCSS

redsvd

C++

biplotr

Give me data, and I'll give you a snazzy biplot!

avoid_the_asteroids

Watch out for them asteroids!

Python

github_mkdocs_template

GitHub actions + Mkdocs template for static site generation

HTML

biocrystal

Open source bioinformatics library for Crystal

Crystal

little_logger

A tiny, little logger for OCaml 💖

Example data and outputs for ZetaHunter.

ZetaHunter_examples

docker_images

The Grand Docker Images Master Repo!!!

Dockerfile

grep_seqs

Grep sequences from seq files.

viral_abundance

bin_coverage

Coverage plots for bins

derep

Simple Ruby gem to calculate Shannon entropy

shannon

Utility functions for working with Gleam's gleeunit test framework

qcheck_gleeunit_utils