Name	Short Description	Language
AssemblyStats	Full genome assembly statistics (Generated by PluGen)	C++
BUSCO	Assess gene assembly and/or annotation using BUSCO (Simao et al, 2015)	C++
BWA	Burrows-Wheeler Alignment (Li and Durbin, 2009)	C++
Canu	Canu (Koren et al, 2017) long-read genome assembly (Generated by PluGen)	C++
Circlator	Circlator (Hunt et al, 2015) genome circularization (Generated by PluGen)	C++
Circular2Linear	Linearize a circular DNA sequence	Python
Flye	Flye genome assembly with long reads (Kolmogorov et al, 2019)	C++
IDBA	Iterative De Brujin genome Assembler (Peng et al, 2012) (Generated by PluGen)	C++
KMerGenie	KMerGenie optimal k-mer length for assembly (Chikhi and Medvedev, 2014)	R
MEDUSA	MEDUSA (Bosi et al, 2015) genome scaffolding (Generated by PluGen)	C++
MegaHit	MegaHit (Li et al, 2015) genome assembly (Generated by PluGen)	C++
MetaQuast	Metagenome assembly evaluation using MetaQuast (Mikheenko et al, 2016)	C++
MetaSPAdes	PluMA plugin to run MetaSPAdes (Nurk et al, 2017) genome assembler (Generated by PluGen)	C++
Quast	Quality Assessment Tool for Genome Assemblies (Gurevich et al, 2013)	C++
ReferencePoint	Change position of a set of genes based on a reference gene	Python
SKESA	SKESA (Souvorov et al, 2018) genome assembly (Generated by PluGen)	C++
SPAdes	SPAdes (Bankevich et al, 2012) genome assembly (Generated by PluGen)	C++
SeqPrep	SeqPrep (St. John, 2016)	C++
Unicycler	Unicycler genome assembly (Wick et al, 2017) (Generated by PluGen).	C++
Velvet	Velvet (Zerbino and Birney, 2008) de Novo Assembly	C++ (Generated by PluGen)
XORRO	XORRO (Dickson and Gloor, 2013)	C++ (Generated by PluGen)

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