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tseemann/seekaPerl

Get microbial sequence data easier and faster

Last commit Nov 7, 2019

 (28 stars) (4 forks) (0 indexed issues) (0 open good first issues)
tseemann/seerC++

sequence element (kmer) enrichment analysis

Last commit Mar 23, 2017

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

Toolkit for processing sequences in FASTA/Q formats

Last commit Oct 6, 2019

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

⚡♠️ Assemble bacterial isolate genomes from Illumina paired-end reads

Last commit Dec 13, 2025

 (261 stars) (48 forks) (0 indexed issues) (0 open good first issues)
tseemann/simuvar

Simulate variants of bacterial genomes for testing SNP callers

Last commit Jul 17, 2017

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

🔬🐛 Rapid 16s rRNA identification from isolate FASTQ files

Last commit Apr 24, 2018

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

It ain't all about skrilla

Last commit May 22, 2020

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

Yet another M.tuberculosis typing and resistance tool, but for the impatient (not in-patient)

Last commit Mar 2, 2020

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

Assembly based core SNP alignments

Last commit Oct 10, 2025

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

Experimental modular bacterial SNP calling pipeline

Last commit Apr 1, 2018

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

:scissors: :zap: Rapid haploid variant calling and core genome alignment

Last commit Dec 12, 2025

 (586 stars) (123 forks) (4 indexed issues) (4 open good first issues)
tseemann/snp-distsC

Pairwise SNP distance matrix from a FASTA sequence alignment

Last commit Dec 31, 2025

 (155 stars) (32 forks) (0 indexed issues) (0 open good first issues)
tseemann/snp-sitesC

Finds SNP sites from a multi-FASTA alignment file

Last commit Jun 9, 2020

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

SPAdes Genome Assembler http://cab.spbu.ru/spades

Last commit May 30, 2016

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

Species prediction from NGS reads

Last commit Aug 29, 2017

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

🥔🐶 Species detection buddy

Last commit Jan 29, 2026

 (1 star) (0 forks) (0 indexed issues) (0 open good first issues)
tseemann/sweet-fxC

FastQ/FastA NGS read file tools

Last commit Nov 4, 2012

 (0 stars) (1 fork) (0 indexed issues) (0 open good first issues)
tseemann/tabixppC++

C++ wrapper to tabix indexer

Last commit Mar 13, 2015

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

Predict plasmids from uncorrected long read data

Last commit Sep 27, 2018

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

Normalize VCF depth for Illumina GC bias

Last commit Feb 25, 2020

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