Discover @cmdcolin Open Source projects

A small database of weird gene annotations

526

oddgenes

Perl

169

aws_serverless_photo_gallery

A JBrowse plugin to view multiple alignment format (MAF) files

mafviewer

A compilation of short descriptions of tech oddities that are weird, debunked or not

technical_oddities

nextjs-appdir-blog

A basic setup for creating a static site/blog using the next 13 "app" directory

A viewer for multiple alignment format (MAF) files in JBrowse 2

jbrowse-plugin-mafviewer

A visualizer for the logistic map, also a demo of rust/wasm+react in a monorepo

logistic_chaos_map

work in progress music player with Rust+GTK4

fml9000

Web based viewer for small to medium GFA format files

graphgenomeviewer

Adds SEQ and QUAL to secondary alignments from SAM/BAM/CRAM

secondary_rewriter

Graph travis-ci build times using command line tools. Deprecated in favor of https://github.com/cmdcolin/travigraphjs

travigraph

Shell

travigraphjs

A website to plot travis-CI build times

A list of cool jbrowse stuff and links around the web

awesome-jbrowse

npm-package-tutorial

Demonstrates babel setup to polyfill Array.prototype.flat

babel-array-flat-demo

Graph tumblr reblogs with cytoscape.js

tumblrgraph2

rust_react_monorepo_template

jbrowse-plugin-gwas

A jbrowse plugin that plots the variant data as a piechart

jbrowse_piechart

cmdcolin.github.io

Homepage

A backup of the source code for TEnest, found on archive.org

TEnest

Perl

bam_index_visualizer

Posts random images of fractals to twitter

twitter_fractal_bot

A JBrowse plugin to color the features and DNA track according the coding frame

colorbycds

A javascript shuffling and resorting of an image for a cool visual effect

resort

A collection of types of genomic signals different people plot

genomesignals

dotfiles

awesome-jbrowse2

monorepo_template

wigglehighlighter

cra-webpack5-web-worker-example

Converts multiple alignment format (MAF) files to a bed file for tabixing

maf2bed

A JBrowse plugin for viewing data from encodeproject.org

encodeplugin

interproscan2genome

gff-nostream

jbrowse-plugin-arc-renderer

A simple frequency modulation synthesizer

1000genomes_jbrowse

freqmod

tree-align-view-react

scverse hackathon project to visually inspect anndata objects in the notebook environment

shinyburndown

anndata_inspector

jbrowse-plugin-trackhub-registry

A base implementation for a cnvpytor plugin

jbrowse-plugin-cnvpytor

jbrowse_segmentcnv

A small JBrowse plugin to help in configuring lots of tracks!

manytracks

Trying to find syntenic blocks between genomes

synteny_finding_experiment

Shell

jbrowse-plugin-ucsc-api

A JBrowse 2 plugin for accessing the UCSC API

jbrowse-plugin-bionano

WIP bionano plugin

An experimental demo of "pairwise indexing" the PAF format using tabix

pairwise_indexed_paf

A express js static server that sets cross-origin isolated headers

express_cross_origin_isolated

interactivepeakannotator

A experimental whole genome alignment pipeline

whole_genome_alignment_pipeline

shinytemplate

A basic template for developing a shiny app as an R package, with some proposed "best practices"

clustal-js

Using JBrowse in a react app

jbrowse_in_react_app

A JBrowse plugin for plotting mpilup style data

mpileupplugin

express_static_file_auth

svxplorer

A frequency modulation synthesizer for node.js, makes crazy noise

freqmod2

fetches all videos from a channel or channels, and shuffles them

ytshuffle

Check that a VCF matches a given reference genome

vcfverifier

remark-demo

bam_fetch_auth_file

browser-nanoid-jest-repro