A bioinformatics platform for rapid detection, identification and characterization of SARS-CoV-2 virus
What is EzCOVID19?
EzCOVID19 is a cloud-based bioinformatics platform for rapid detection, identification and characterization of SARS-CoV-2 virus from raw metagenomic, metatranscriptomic, RNA-seq and/or isolate (amplicon or enrichment) next-gen sequence data suspected of containing the SARS-CoV-2 virus. EzCOVID19 provides scientists with a consensus genome assembly along with statistics related to genome coverage, depth metrics and coverage plots relative to the reference SARS-CoV-2 genome.
Furthermore, to deliver additional insight into the nature of this virus as well as it’s origin, evolution and relationship to concurrently circulated publicly available SARS-CoV-2 genomes, EzCOVID19 offers characterization and typing of the entire viral genome when adequate coverage of the genome is obtained. It provides Single Nucleotide Variant (SNV) information, including a graph and table with detected variants in the SARS-CoV-2 genome, identifies most similar genomes available in the reference databases (i.e., GISAID) based on alignment statistics and SNVs, including a maximum likelihood or parsimony based similarity tree decorated with SNV profiles, and offers classification or typing of the queried genome using EzBioCloud’s SNP based classification scheme of SARS-CoV-2 variants, including an evolutionary analysis of the detected SARS-CoV-2 type along with other types observed among publicly available SARS-CoV-2 genomes.
SARS-CoV-2 in public next-gen sequence data
Metagenomic, metatranscriptomic, RNA-seq and/or isolate (amplicon or enrichment) next-gen sequence data
Check if your sample contains SARS-CoV-2
Supports single-end/paired-end FASTQ raw files from isolate and metagenomic data.
Example Input files
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Choose a data type.
Metagenomic raw data
In the future, metagenomic inputs will
also include taxonomic profiling.
Isolate raw data
Upload a single-end/paired-end sample.
We will send you a link when the analysis is finished.
Upload & Analyze
We will send a notification to once the analysis completes.
(%) reads from the queried dataset classified to the SARS-CoV-2 reference genome covering % of the genomic sequence.
No reads classified as SARS-CoV-2 virus were obtained from the sample.
An error occured during the run.
Total number of reads in the queried dataset
Number of reads classified to the SARS-CoV-2 genome
Percentage of reads classified
Percentage of genome coverage
Base number of genome coverage
Total count of covered bases
Severe acute respiratory syndrome coronavirus 2 isolate Wuhan-Hu-1, complete genome