Molecular biology software virSEAK

reportingimportNGS

virSEAK (RUO - research use only) offers quick and convenient comparison of your SARS-CoV-2 sequence to the available sequences. After a personalized setup with your kit, simply load fastq- or fasta data and obtain an aligned sequence with variants. Additionally, your sequence will be assigned to a pangolin lineage (e.g. B.1.1.7) and a GISAID clade (e.g. L). virSEAK also automatically checks whether your sequence contains the spike protein variants N501Y and or E484K. Coverage and Quality values are shown, including: required-, absolute-, average- and median coverage, % of “wild type” and “N” bases. A quality indicator shows if the quality satisfies the defined quality thresholds. Also, the tool is optimized for high-throughput NGS sequencing with automated import and export functions and customizable transfer of sequence. Easily create multi-fasta files to improve the reporting to a central reporting office for surveillance of epidemiological situation and spread of mutations (e.g. for Germany the Robert Koch Institut). virSEAK - installable version: easy import of either raw fastq or preprocessed fasta sequencing files high-throughput NGS sequencing with automated batch import and export automatic alert if the mutation(s) N501Y and/or E484K are contained get an assignment to a Pangolin lineage and a GISAID clade check for other variants with frequencies compare subtypes, counts and locations of findings, ... export sequence and variants (with meta information, in fasta and/or csv format) results are stored fully automated high-throughput sequencing with customizable transfer of sequence