SAMSA2: a standalone metatranscriptome analysis pipeline

BMC Bioinformatics

Table 2 Summary of differences between SAMSA versions

Advantage	SAMSA2	SAMSA 1.0
Runtime^a	Weeks	Months
Accuracy	95% (genus level)	91% (genus level)
Custom database options	Yes	No
Version control for reproducibility	Yes	No
Data slicing	Organism, group, function, taxonomy level, functional category	Organism, function
Figures and graphs	PCA, pie, barplot, diversity	barplot

^aRuntime dependent on number of reads. SAMSA 1.0 runtimes are longer if permission is not given to MG-RAST to make the data public immediately

ISSN: 1471-2105