EVAapplication/xmlftp://ftp.ebi.ac.uk/pub/databases/eva/PRJEB45554/2021_09_06_filtered_vcf.accessioned.vcf.gzftp://ftp.ebi.ac.uk/pub/databases/eva/PRJEB45554/2021_10_04_filtered_vcf.accessioned.vcf.gz.csiftp://ftp.ebi.ac.uk/pub/databases/eva/PRJEB45554/2021_09_06_filtered_vcf.accessioned.vcf.gz.csiftp://ftp.ebi.ac.uk/pub/databases/eva/PRJEB45554/2021_09_20_filtered_vcf.accessioned.vcf.gz.csiftp://ftp.ebi.ac.uk/pub/databases/eva/PRJEB45554/2021_10_04_filtered_vcf.accessioned.vcf.gzftp://ftp.ebi.ac.uk/pub/databases/eva/PRJEB45554/2021_09_20_filtered_vcf.accessioned.vcf.gzprimary200OK0000-GenomicsEMBL-EBI-Severe Acute Respiratory Syndrome Coronavirus 2https://www.ebi.ac.uk/eva/?eva-study=PRJEB45554EVACOVID19, SARS Coronavirus 2, SARS-CoV-2 Viruses, β-CoVs, 2019 Novel, 2019 Novel Coronavirus, betacoronavirus, β-CoV, Viruses, beta-CoV, COVID-19 Viruses, Coronavirus Disease 2019 Virus, COVID-19, Wuhan Seafood Market Pneumonia Virus, 2019 Novel Coronaviruses., SARS-CoV-2, severe acute respiratory syndrome coronavirus 2, 2019 novel coronavirus, Coronavirus 2, Wuhan, SARS CoV 2 Virus, beta-CoVs, COVID19 Virus, SARS-coronavirus 2, COVID-19 Virus, COVID19 Viruses, Severe Acute Respiratory Syndrome Coronavirus 2, SARS, SARS-CoV-2 Virus, Novel Coronavirus, Virus, 2019, Coronavirus, COVID 19 Virus, β-coronavirus, 2019-nCoV, Wuhan CoronavirusBru, IPP2A2, Military Uniform, BamF, l(3)05592, biml, Raw, determination, BamC, CG 1618, Sequence Determination, vcfs, bam, VCFS, dNSF, 2019 novel coronavirus, SDH, Military Uniforms, dgcr, dorv, 5730420M11Rik, DmNSF, DmelCG1007, Associations, DGCR, LOR|SDH, Novel Coronavirus, DORV, TGA, Virus, dNSF1, DGS, dNsf1, Analysis, Faroe Islands, DmelCG10422, Work Flow, Infectious Diseases, Lysine ketoglutarate reductase, Svc, SET, F, Analyses, Genomes, Determination, TAF-I, HCAP, beta-CoVs, Sequence Determinations, CDLS3, LKR|SDH, DmelCG4063, Military, DmelCG4299, IGAAD, set, Ach, DmelCG10574, l(3)61Da, Tbl1, TBL1, SIMPLE, Garments, Nurse, phapii, SARS-CoV-2 Viruses, β-CoV, Infectious Disease, COVID-19 Viruses, gov, SARS-CoV-2, StF-IT-1, ham, Coronavirus 2, EMC, Emc, CG1007, Determinations, Communicable Disease, COVID19 Viruses, Workflows, Lorsdh, SARS-CoV-2 Virus, PIG7, Diseases, LKR, Coronavirus, University, disease by infectious agent, 0977/09, dnsf1, CG4063, HLA-DR-associated protein II, DI-2, Communicable, Coronavirus Disease 2019 Virus, I-2Dm, xtbx1, School, CG4299, whole genome, alpha, E-2f, E-2g, I-2PP1, 0587/01, TAF-IBETA, School Uniforms, BIM, School Uniform, Uniforms, 2019, SMC3L1, NSF-1, TAF-Ibeta, Clothes, i2pp2a, Work Flows, Saccharopine dehydrogenase, COVID19, bim, Tb11, False, tbx1c, COVID-19, Comt, NSF1, Kingdom of the Netherlands, 1.5.1.8, 1.5.1.9, cthm, SARS CoV 2 Virus, COVID19 Virus, PHAPII, FBXW4, NSF, Nsf, fs(3)neo61, CG10422, Northern Europe, CG1618, SARS, CTHM, LOR, bim-beta7, Del(8)44H, β-coronavirus, VCF, Southern Europe, 2019-nCoV, 2019 Novel Coronaviruses, l(3)04322, Nurse Uniform, SARS Coronavirus 2, β-CoVs, Viruses, bim-beta6, Ebi, EBI, Wuhan Seafood Market Pneumonia Virus, ipp2a2, 2pp2a, severe acute respiratory syndrome coronavirus 2, chondrosarcoma, l(3)j4E11, River, BMH, CG10574, COVID-19 Virus, Faeroe Islands, 2PP2A, endoplasmic reticulum membrane protein complex, taf-ibeta, dSET, dSet, DmelCG1618, CSPG6, Wuhan Coronavirus, Sequence Analyses, TP53I7, com, Disease, cafs, 2019 Novel Coronavirus, beta-CoV, Uniform, Dm0688, igaad, tbx1, Infectious, bHLHb28, BOD, SMAP55, Stream, group, read, Severe Acute Respiratory Syndrome Coronavirus 2, Nurse Uniforms, Western Europe., I-2PP2A, Sequence, chemical analysis, Dm I-2, I2PP2A, pseudoplasmodial stream, sequence, CAFS, bod, dNSF-1, bimel, velocardiofacial syndrome, 2019 Novel, betacoronavirus, Col4a-1, ensemble, Garment, 0203/10, ms(3)61CD, Wuhan, primary structure of sequence macromolecule, l(2)k16213, Streams, SARS-coronavirus 2, Holland, dSET/TAF-Ibeta, TBX1C, 2610030F17Rik, Bam-C, BAM, extraskeletal myxoid, Bam, CATCH22, COVID 19 Virus, assay, 0094/26, AA4077390falseSystematically called variant data of public SARS-CoV-2 readsEMBL-EBI, in collaboration with Erasmus Medical Center (EMC), Netherlands, Eötvös Loránd University (ELTE), Hungary and Technical University of Denmark, Denmark as part of the VEO (Versatile emerging infectious disease observatory) project, stream all public SARS-CoV-2 INSDC raw read data through the COVID Sequence Analysis Workflow (https://github.com/enasequence/covid-sequence-analysis-workflow) to produce a set of uniform variant calls (VCF Format). Briefly, reads are mapped to the SARS-CoV-2 reference genome, variants are called using LoFreq and annotated using SnpEff . VCFs associated with this project are unfiltered variant calls and as such may contain false positives calls and homopolymer errors. BAM files are provided as output by the analysis workflow along with a simple coverage information file. Users are advised to use these in association with the VCFs to perform any filtering tasks prior to using these VCFs for downstream analysis presentation or analysis. VEO: https://www.veo-europe.eu/2021-06-07PRJEB455542697049