Sammanfattning

Motivation: The accurate in silico simulation of metagenomic datasets is of great importance for benchmarking bioinformatics tools as well as for experimental design. Users are dependant on large-scale simulation to not only design experiments and new projects but also for accurate estimation of computational needs within a project. Unfortunately, most current read simulators are either not suited for metagenomics, out of date or relatively poorly documented. In this article, we describe InSilicoSeq, a software package to simulate metagenomic Illumina sequencing data. InsilicoSeq has a simple command-line interface and extensive documentation.Results: InSilicoSeq is implemented in Python and capable of simulating realistic Illumina (meta) genomic data in a parallel fashion with sensible default parameters.

Publicerad i

Bioinformatics
2019, Volym: 35, nummer: 3, sidor: 521-522
Utgivare: OXFORD UNIV PRESS

SLU författare

• Gourlé, Hadrien

  • Institutionen för husdjurens biovetenskaper, Sveriges lantbruksuniversitet
    

• Karlsson Lindsjö, Oskar

  • Institutionen för molekylära vetenskaper, Sveriges lantbruksuniversitet
    

• Hayer, Juliette

  • Institutionen för husdjurens biovetenskaper, Sveriges lantbruksuniversitet
    

• Bongcam Rudloff, Erik

  • Institutionen för husdjurens biovetenskaper, Sveriges lantbruksuniversitet
    

UKÄ forskningsämne

Bioinformatik (beräkningsbiologi)


Publikationens identifierare

DOI: https://doi.org/10.1093/bioinformatics/bty630

Permanent länk till denna sida (URI)

https://res.slu.se/id/publ/99031