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tseemann repositories

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tseemann/homebrew-extraRuby

:candy::penguin: Linux-only formulae that are not dependencies of core formulae

Last commit Mar 24, 2018

 (0 stars) (0 forks) (0 indexed issues) (0 open good first issues)
tseemann/homebrew-scienceRuby

:snowflake: Scientific formulae for Homebrew and Linuxbrew (legacy)

Last commit Apr 12, 2019

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tseemann/injectaPerl

Insert genes into genomes to aid synthetic test data generation

Last commit Sep 5, 2019

 (5 stars) (0 forks) (0 indexed issues) (0 open good first issues)
tseemann/iupakPerl

Decode and display IUPAC code information

Last commit Jan 3, 2026

 (0 stars) (0 forks) (0 indexed issues) (0 open good first issues)
tseemann/joystx

Shigatoxin STX typing for E.coli STEC

Last commit Feb 7, 2019

 (0 stars) (0 forks) (0 indexed issues) (0 open good first issues)
tseemann/k2dbHTML

Kraken 2 database management tool

Last commit Jan 7, 2026

 (2 stars) (0 forks) (0 indexed issues) (0 open good first issues)
tseemann/kalignC

A fast multiple sequence alignment program.

Last commit Oct 28, 2019

 (0 stars) (0 forks) (0 indexed issues) (0 open good first issues)
tseemann/kloshamC

Find closest aligned sequences to a query sequnece

Last commit Apr 3, 2022

 (6 stars) (0 forks) (0 indexed issues) (0 open good first issues)
tseemann/kopynumba

Identify copy number variation in bacterial Illumina sequences

Last commit Aug 13, 2020

 (6 stars) (0 forks) (0 indexed issues) (0 open good first issues)
tseemann/kountaPerl

🧮 🔢 Generate multi-sample k-mer count matrix from WGS

Last commit Jan 17, 2026

 (11 stars) (3 forks) (0 indexed issues) (0 open good first issues)
tseemann/kroucha

Mock repository for Sanger publications citing Croucher et al

Last commit Oct 27, 2018

 (1 star) (0 forks) (0 indexed issues) (0 open good first issues)
tseemann/kurra

Fast whole genome phylogeny

Last commit Dec 8, 2020

 (4 stars) (0 forks) (0 indexed issues) (0 open good first issues)
tseemann/lathePython

A tool for generating bacterial genomes from metagenomes with nanopore long read sequencing

Last commit Oct 14, 2019

 (1 star) (0 forks) (0 indexed issues) (0 open good first issues)
tseemann/legstaPerl

🍗⭐ In silico Legionella pneumophila Sequence Based Typing

Last commit Feb 8, 2026

 (11 stars) (5 forks) (0 indexed issues) (0 open good first issues)
tseemann/linuxbrew-coreRuby

🍻🐧 Core formulae for the Homebrew package manager on Linux

Last commit Feb 25, 2020

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tseemann/mini-outbreak

Small WGS dataset for testing bacterial outbreak analysis pipelines

Last commit Aug 23, 2019

 (2 stars) (0 forks) (0 indexed issues) (0 open good first issues)
tseemann/minimap2C

A versatile pairwise aligner for genomic and spliced nucleotide sequences

Last commit Jul 18, 2019

 (0 stars) (0 forks) (0 indexed issues) (0 open good first issues)
tseemann/mlstPerl

:id: Scan contig files against PubMLST typing schemes

Last commit Mar 26, 2026

 (285 stars) (58 forks) (2 indexed issues) (2 open good first issues)
tseemann/mlst-1Roff

Singularity container for MLST

Last commit Feb 9, 2018

 (0 stars) (0 forks) (0 indexed issues) (0 open good first issues)
tseemann/mlstk

Next generation MLST toolkit

Last commit Dec 9, 2025

 (5 stars) (0 forks) (0 indexed issues) (0 open good first issues)