2026-10-07T07:41:07Z https://api.figshare.com/v2/oai

oai:figshare.com:article/33940657 2026-09-18T20:24:33Z category_24310 category_28846 item_type_3 month_year_09_2026

Simulated metagenomes for Mixed <i>E. coli</i> Benchmarking study Vaishnavi Divya Shridar (24762616) Stefan Engblom (17495646) Genomics Modelling and simulation Simulated Metagenomes <p dir="ltr">This zipped folder contains two subfolders of zipped FASTQ files.</p><ol><li>The subfolder <b>shortreads </b>contains 80 paired-end short-read metagenomes (160 FASTQ files) that were simulated for analysis of gene detection and strain typing tools using InSilicoSeq. These metagenomes make up three different datasets of ST+Serotype, Antibiotic Resistance Gene (ARG) and Virulence Gene (VG) where the ST+Serotype dataset has 60 simulated metagenomes while the other two have 10 each. Metadata indicating the dominant MLST according to the Achtman-7 scheme and Serotype in the simulated metagenomes and their proportions can be found in <b>metadata.xlsx</b>. The genes present in each of the 10 simulated metagenomes belonging to the datasets of ARG and VG can also be found in the metadata. </li><li>The subfolder <b>longreads</b> contains 10 long-read metagenomes simulated at 15000bp using Badread with its pacbio2016 error model.</li></ol><p dir="ltr">All results from these simulation experiments and figures can be found at the associated GitHub of <a href="https://github.com/dibsondivya/MixEcoliBench" target="_blank" rel="noreferrer">https://github.com/dibsondivya/MixEcoliBench</a> under the MIT License. Its associated README contains more detailed information.</p> 2026-09-18T20:24:33Z Dataset Dataset 10.6084/m9.figshare.33940657.v1 https://figshare.com/articles/dataset/Simulated_metagenomes_for_Mixed_i_E_coli_i_Benchmarking_study/33940657 CC BY 4.0