CAMISIM hybrid time series data

<p>CAMISIM was used&nbsp;to simulate Illumina and Nanopore reads for a time series based on the genome sources from the &ldquo;CAMI II challenge toy mouse gut dataset&rdquo; (Meyer et al., 2021), containing 791 genomes. For this, the most recent development version of CAMISIM at the time of preparing this data was used&nbsp;(available at&nbsp;<a href="https://doi.org/10.5281/zenodo.5137751">https://doi.org/10.5281/zenodo.5137751</a>).&nbsp;Two groups of samples were generated by using different CAMISIM seeds, each comprising a time series of four samples.</p> <p>The sample sheet file (samplesheet.CAMISIM_hybrid.csv)&nbsp;can be used as direct input for the nf-core/mag pipeline, e.g.&nbsp;with the command:</p> <p>&gt;&nbsp;nextflow run nf-core/mag -r 2.1.0 -profile &lt;docker/singularity/podman/shifter/charliecloud/conda/institute&gt;&nbsp;--input https://zenodo.org/record/5155395/files/samplesheet.CAMISIM_hybrid.csv --coassemble_group</p> <p>Note,&nbsp;in case of download problems, restarting the pipeline run with `-resume` or downloading the files beforehand and adjusting the paths in the sample sheet file should help.</p> <p>See&nbsp;<a href="https://nf-co.re/mag">https://nf-co.re/mag</a>&nbsp;for a comprehensive usage documentation.</p> <p>&nbsp;</p>