Discover ctb/2017-sourmash-lca Open Source project

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Created about 7 years ago
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blastkit

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labibi

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Simple drawing code for pygr features

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Lab Web site at MSU

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A simple snakefile to play with slurm foo

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2017-binder-workshop-notes

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2013-reproducible-bioinfo

2018-snakemake-cli

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2016-mybinder-inflammation

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Try 2 of detecting/removing microbial contamination from long-read assemblies.

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hmmertree

Exploring distance-matrix-based clustering of HMMER results

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2020-jgi-tech-talk

JGI Tech Talk binder repo

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sourmash plugin to filter hashes/k-mers by presence across many sketches

Python

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eel-pond

Python

2022-assembly-summary-to-lineages

Convert NCBI assembly_summary files into sourmash taxonomy databases.

Python

2015-docker-building

Shell

ribbity

Python

2015-khmer-sequence-bloom-trees

Python

magsearch

Workflow and config files for searching (very) large public databases with sourmash sketches

Standard ML

lqueue

Simple localhost FIFO queue

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2020-stacked-dot-plots

2015-sbt-demo

paircomp

pygr-examples

paper-reviews

ngs-notebooks

Python

lamprey-est-map

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sartre

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2017-sourmash-cluster

Jupyter Notebook

2017-moore-ddd-annual-report

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testing the plugin template!

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2019-upr-kmers

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2022-sourmash-sens-spec

Playing around with sens/spec measurements for simulated stuff

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BEACON course

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2021-sourmash-unroll-compare

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resume

My CV & resume.

TeX

2024-human-contam

Explore microbial contamination in human whole-genome shotgun data sets, using sourmash

2014-streaming

www-pygr.org

2020-ggg298-class9

2018-tamer-transcriptome

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qingpeng-cv

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dbg-graph-null

Python scripts to generate random genomes and reads

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2018-clustering-bins-example

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swc-git-intermediate-bisect

2015-pycon-talk

HTML

2016-lessons-from-gerry

An article for my father's memorial volume

TeX

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An experimental plugin to load sketches from a FASTA/FASTQ file with lazy sketching.

Python

2019-tara-binning2

More explorations of Tara ocean data set binning foo

Python

2017-sourmash-binder-demo

waroo

makeitso

2022-github-classroom-example

github classroom example

2022-sourmash-sqlite

Storing sourmash signatures/sketches in a SQLite database

ctb.github.com

cse491-webz

2015-davis-t3-day3

test2

bags

Bacterial genomics with pygr

Python

2021-sourmash-datasette

Exploring datasette for exploring microbial taxonomy analyses of metagenomes wit hsourmash

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2023-ems-worm-genomes

Jupyter Notebook

2016-phil-openscience

2021-sourmash-jsonrpc

A simple JSON RPC client/server setup for sourmash databases

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2020-distance-compare

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speet

Python

2022-sourmash-uniqify

Greedy iterative clustering of genomes using sourmash

Python

2021-petabyte-example

Python

herbert

Shell

cse891-fall-2011-test

pony-build-git-test

Test repository for pony-build's git client.

ctb/2017-sourmash-lca

ctb

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