Browsing byAuthorDarling, AE

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Issue DateTitleAuthor(s)
2021-10qc3C: Reference-free quality control for Hi-C sequencing data.DeMaere, MZ; Darling, AE
2021-08-09Post-weaning shifts in microbiome composition and metabolism revealed by over 25 000 pig gut metagenome-assembled genomes.Gaio, D; DeMaere, MZ; Anantanawat, K; Chapman, TA; Djordjevic, SP; Darling, AE
2021-07-26STRONG: metagenomics strain resolution on assembly graphsQuince, C; Nurk, S; Raguideau, S; James, R; Soyer, OS; Summers, JK; Limasset, A; Eren, AM; Chikhi, R; Darling, AE
2021-07-26STRONG: metagenomics strain resolution on assembly graphsQuince, C; Nurk, S; Raguideau, S; James, R; Soyer, OS; Summers, JK; Limasset, A; Eren, AM; Chikhi, R; Darling, AE
2021-07-26STRONG: metagenomics strain resolution on assembly graphsQuince, C; Nurk, S; Raguideau, S; James, R; Soyer, OS; Summers, JK; Limasset, A; Eren, AM; Chikhi, R; Darling, AE
2021-07-23Strainberry: automated strain separation in low-complexity metagenomes using long readsVicedomini, R; Quince, C; Darling, AE; Chikhi, R
2021-06-03A large-scale metagenomic survey dataset of the post-weaning piglet gut lumenGaio, D; DeMaere, MZ; Anantanawat, K; Eamens, GJ; Liu, M; Zingali, T; Falconer, L; Chapman, TA; Djordjevic, SP; Darling, AE
2021-03Tutorial: assessing metagenomics software with the CAMI benchmarking toolkit.Meyer, F; Lesker, T-R; Koslicki, D; Fritz, A; Gurevich, A; Darling, AE; Sczyrba, A; Bremges, A; McHardy, AC
2020-06-04Whole Genome Sequencing Analysis of Porcine Faecal Commensal Escherichia coli Carrying Class 1 Integrons from Sows and Their Offspring.Zingali, T; Reid, CJ; Chapman, TA; Gaio, D; Liu, M; Darling, AE; Djordjevic, SP
2020-02-06Metagenomic Hi-C of a Healthy Human Fecal Microbiome Transplant Donor.DeMaere, MZ; Liu, MYZ; Lin, E; Djordjevic, SP; Charles, IG; Worden, P; Burke, CM; Monahan, LG; Gardiner, M; Borody, TJ; Darling, AE
2020-01-01Whole-genome analysis of extraintestinal Escherichia coli sequence type 73 from a single hospital over a 2 year period identified different circulating clonal groupsBogema, DR; McKinnon, J; Liu, M; Hitchick, N; Miller, N; Venturini, C; Iredell, J; Darling, AE; Chowdury, PR; Djordjevic, SP
2019-11-01BEAGLE 3: Improved Performance, Scaling, and Usability for a High-Performance Computing Library for Statistical PhylogeneticsAyres, DL; Cummings, MP; Baele, G; Darling, AE; Lewis, PO; Swofford, DL; Huelsenbeck, JP; Lemey, P; Rambaut, A; Suchard, MA
2019-06-01Genomes from bacteria associated with the canine oral cavity: A test case for automated genome-based taxonomic assignmentCoilID, DA; Jospin, G; Darling, AE; Wallis, C; Davis, IJ; Harris, S; Eisen, JA; Holcombe, LJ; O'Flynn, C
2019-03-01Identification of a novel lineage of plasmids within phylogenetically diverse subclades of IncHI2-ST1 plasmidsRoy Chowdhury, P; Fourment, M; DeMaere, MZ; Monahan, L; Merlino, J; Gottlieb, T; Darling, AE; Djordjevic, SP
2019-02-26Bin3C: Exploiting Hi-C sequencing data to accurately resolve metagenome-assembled genomesDemaere, MZ; Darling, AE
2019-02-13High contiguity genome sequence of a multidrug-resistant hospital isolate of Enterobacter hormaecheiMonahan, LG; Demaere, MZ; Cummins, ML; Djordjevic, SP; Roy Chowdhury, P; Darling, AE
2019-02-08CAMISIM: Simulating metagenomes and microbial communitiesFritz, A; Hofmann, P; Majda, S; Dahms, E; Dröge, J; Fiedler, J; Lesker, TR; Belmann, P; Demaere, MZ; Darling, AE; Sczyrba, A; Bremges, A; McHardy, AC
2019-01-01Evaluating probabilistic programming and fast variational Bayesian inference in phylogeneticsFourment, M; Darling, AE
2018-07-20Visualization of Biomedical DataO'Donoghue, SI; Baldi, BF; Clark, SJ; Darling, AE; Hogan, JM; Kaur, S; Maier-Hein, L; McCarthy, DJ; Moore, WJ; Stenau, E; Swedlow, JR; Vuong, J; Procter, JB
2018-07-03Local and relaxed clocks, the best of both worldsFourment, M; Darling, AE