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tseemann repositories

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tseemann/mokka

Annotate your metagenome assemblies

Last commit Jul 19, 2018

 (11 stars) (1 fork) (0 indexed issues) (0 open good first issues)
tseemann/mrepsC

mreps: software for tandem repeat identification in DNA

Last commit Oct 28, 2019

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

🍣 🦐 A lightweight nucleotide bacterial ortholog clustering tool

Last commit Oct 2, 2019

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

:floppy_disk: :page_with_curl: "Reads to report" for public health and clinical microbiology

Last commit Aug 3, 2020

 (144 stars) (39 forks) (6 indexed issues) (6 open good first issues)
tseemann/oasesC

De novo transcriptome assembler for short reads

Last commit Mar 14, 2015

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

Calculate genome wide average nucleotide identity (gwANI) for a multiFASTA alignment

Last commit May 8, 2017

 (1 star) (2 forks) (0 indexed issues) (0 open good first issues)
tseemann/perl-biotoolPerl

🐫 🐪 Small pure Perl5 libraries for writing command line bioinformatics tools

Last commit Nov 12, 2019

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

Identify phage regions in bacterial genomes for masking purposes

Last commit Sep 5, 2019

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

Pan intergenic

Last commit May 23, 2017

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

Fix small assembly errors using Illumina reads

Last commit Aug 9, 2020

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

🔪⛓️ Repair nanopore assemblies using related genome(s)

Last commit Aug 19, 2019

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

:zap: :aquarius: Rapid prokaryotic genome annotation

Last commit Jan 6, 2026

 (977 stars) (236 forks) (0 indexed issues) (0 open good first issues)
tseemann/psortemPerl

Parallel external merge sort

Last commit Jan 29, 2026

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

A pure python toolkit for k-mer manipulation

Last commit Nov 23, 2016

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

Fast implementation of the neighbour-joining phylogenetic inference method

Last commit Apr 9, 2017

 (3 stars) (1 fork) (0 indexed issues) (0 open good first issues)
tseemann/ragnarokka

Annotate and correct erro-prone ONT genomes

Last commit Jun 21, 2021

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

SaffronTree: Reference free rapid phylogenetic tree construction from raw read data

Last commit Mar 11, 2017

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

Filter SAM file for soft and hard clipped alignments

Last commit Dec 31, 2025

 (53 stars) (10 forks) (0 indexed issues) (0 open good first issues)
tseemann/scapperPerl

Whole genome core alignments from multiple draft genomes

Last commit Sep 14, 2016

 (13 stars) (3 forks) (0 indexed issues) (0 open good first issues)
tseemann/scriptsPerl

Miscellaneous Perl scripts from 20 years in microbial bioinformatics

Last commit Jul 16, 2024

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