NG-meta-profiler: fast processing of metagenomes using NGLess, a domain-specific language

Luis Pedro Coelho, Renato Alves, Paulo Monteiro, Jaime Huerta-Cepas, Ana Teresa Freitas, Peer Bork
<span title="2019-06-03">2019</span> <i title="Springer Science and Business Media LLC"> <a target="_blank" rel="noopener" href="https://fatcat.wiki/container/wf7hw6dszneotfrzxhzcmknpdy" style="color: black;">Microbiome</a> </i> &nbsp;
Shotgun metagenomes contain a sample of all the genomic material in an environment, allowing for the characterization of a microbial community. In order to understand these communities, bioinformatics methods are crucial. A common first step in processing metagenomes is to compute abundance estimates of different taxonomic or functional groups from the raw sequencing data. Given the breadth of the field, computational solutions need to be flexible and extensible, enabling the combination of different tools into a larger pipeline.
<span class="external-identifiers"> <a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1186/s40168-019-0684-8">doi:10.1186/s40168-019-0684-8</a> <a target="_blank" rel="external noopener" href="https://www.ncbi.nlm.nih.gov/pubmed/31159881">pmid:31159881</a> <a target="_blank" rel="external noopener" href="https://pubmed.ncbi.nlm.nih.gov/PMC6547473/">pmcid:PMC6547473</a> <a target="_blank" rel="external noopener" href="https://fatcat.wiki/release/a44vlibljvebhl2gs7vwfllbnq">fatcat:a44vlibljvebhl2gs7vwfllbnq</a> </span>
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