Projects in Awesome Lists by ctb
A curated list of projects in awesome lists by ctb .
https://github.com/ctb/pony-build
A simple continuous integration system, written in Python.
Last synced: 29 Jul 2025
https://github.com/ctb/advanced-swc
Intermediate and Advanced Software Carpentry tutorial material
Last synced: 29 Jul 2025
https://github.com/ctb/twill-legacy
A simple command-line Web browser, for testing and Web automation.
Last synced: 29 Mar 2025
https://github.com/ctb/figleaf
A code coverage recording and analysis tool for Python
Last synced: 29 Jul 2025
https://github.com/ctb/2019-snakemake-ucdavis
Intro to workflows for efficient automated data analysis, using snakemake.
Last synced: 12 Apr 2025
https://github.com/ctb/somepackage
A simple example package for thinking about test packaging.
Last synced: 25 Jun 2025
https://github.com/ctb/meep
Meep! A simple messageboard implementation for a class.
Last synced: 29 Jul 2025
https://github.com/ctb/screed
a simple read-only sequence database, designed for short reads
Last synced: 11 Jan 2026
https://github.com/ctb/khmer-ngram
Simple probabilistic de Bruijn graph representation
Last synced: 29 Jul 2025
https://github.com/ctb/2025-ncbi-rest-api
Grabbing genome accessions & download info based on taxonomy, using the NCBI REST API, w00t
Last synced: 19 Apr 2025
https://github.com/ctb/2012-paper-diginorm
Paper source, analysis notebook, and data generation/analysis scripts for diginorm paper
Last synced: 27 Oct 2025
https://github.com/ctb/2022-assembly-summary-to-lineages
Convert NCBI assembly_summary files into sourmash taxonomy databases.
Last synced: 14 Oct 2025
https://github.com/ctb/deepchem-book
Code exploration from Deep Learning for the Life Sciences: Applying Deep Learning to Genomics, Microscopy, Drug Discovery, and More
Last synced: 03 Aug 2025
https://github.com/ctb/2019-snakemake-slurm
A simple snakefile to play with slurm foo
Last synced: 29 Jul 2025
https://github.com/ctb/guppy
GED Lab Python scripts / bioinformatics trivia
Last synced: 26 Mar 2025
https://github.com/ctb/zounds
Worker bee software for using BLAST and HMMER in Beowulf-style environments
Last synced: 22 Jun 2025
https://github.com/ctb/scotch
A simple WSGI recording & playback interface, with a proxy server.
Last synced: 26 Mar 2025
https://github.com/ctb/2024-human-contam
Explore microbial contamination in human whole-genome shotgun data sets, using sourmash
Last synced: 10 Mar 2026
https://github.com/ctb/2020-long-read-assembly-decontam
Try 2 of detecting/removing microbial contamination from long-read assemblies.
Last synced: 20 Aug 2025
https://github.com/ctb/hmmertree
Exploring distance-matrix-based clustering of HMMER results
Last synced: 26 Mar 2025
https://github.com/ctb/2022-sourmash-sens-spec
Playing around with sens/spec measurements for simulated stuff
Last synced: 26 Mar 2025
https://github.com/ctb/magsearch
Workflow and config files for searching (very) large public databases with sourmash sketches
Last synced: 06 Jan 2026
https://github.com/ctb/sourmash_plugin_commonhash
sourmash plugin to filter hashes/k-mers by presence across many sketches
Last synced: 29 Jul 2025
https://github.com/ctb/2025-sourmash-analyzing-genomes-and-metagenomes
An introduction to evaluating stuff with sourmash
Last synced: 09 Oct 2025
https://github.com/ctb/sourmash_plugin_load_from_fasta
An experimental plugin to load sketches from a FASTA/FASTQ file with lazy sketching.
Last synced: 26 Mar 2025
https://github.com/ctb/2019-upr-kmers
A binderized repo on DNA k-mers, for a bio/Big Data class at U Puerto Rico Rio Piedras
Last synced: 26 Mar 2025
https://github.com/ctb/get-some-ncbi-genomes
Download one or more NCBI genomes; includes sourmash plugin.
Last synced: 11 Oct 2025
https://github.com/ctb/sourmash_plugin_template_test1
testing the plugin template!
Last synced: 04 Jul 2025
https://github.com/ctb/2022-sourmash-uniqify
Greedy iterative clustering of genomes using sourmash
Last synced: 19 Jun 2026
https://github.com/ctb/sourmash_plugin_abundhist
A plugin to display abundance histograms of k-mers based on sourmash sketches
Last synced: 27 Oct 2025
https://github.com/ctb/2021-sourmash-jsonrpc
A simple JSON RPC client/server setup for sourmash databases
Last synced: 06 Jul 2025
https://github.com/ctb/2022-sourmash-sqlite
Storing sourmash signatures/sketches in a SQLite database
Last synced: 15 Jun 2025
https://github.com/ctb/2022-github-classroom-example
github classroom example
Last synced: 19 Mar 2026
https://github.com/ctb/2019-tara-binning2
More explorations of Tara ocean data set binning foo
Last synced: 26 Mar 2025
https://github.com/ctb/2016-lessons-from-gerry
An article for my father's memorial volume
Last synced: 02 Feb 2026
https://github.com/ctb/pony-build-git-test
Test repository for pony-build's git client.
Last synced: 05 Jan 2026