QuasiModo - Quasispecies Metric Determination on Omics
This repository contains the scripts and pipeline that reproduces the results of the HCMV benchmarking study. In this study we evaluated genome assemblers and variant callers on 10 in vitro generated, mixed strain HCMV sequence samples, each consisting of two lab strains in different abundance ra...Tags: QuasiModo, Quasispecies, Metric, Determination, Omics, Virus, Genome, Variant, Assembly, SNP
1055 days ago
Tags: Corona, Virus, Literature, Disease, Viruses
885 days ago
Tags: MPXV, Virus, Globe, Infection
514 days ago
Tags: Virus, Bioinformatics, Tools
22 days ago
Sequencing Solutions to World Health
"New technology that quickly, easily and economically reveals the genomes of viruses and pathogens transforms public health and medicine." Source: Life technologiesTags: Sequencing, virus, pathogen, health, medicine
3913 days ago
Tags: Corona, virus, China, Resources, CoVID, covid, china, genome, assembly, dna, rna, sequences, evolution, study, comparative, genomics
1470 days ago
Tags: 3dCoronavirus, SARS-CoV-2, corona, virus, 3D, NanoGraphics
1429 days ago
IVA: accurate de novo assembly of RNA virus genomes
IVA (Iterative Virus Assembler) designed specifically for read pairs sequenced at highly variable depth from RNA virus samples. We tested IVA on datasets from 140 sequenced samples from human immunodeficiency virus-1 or influenza-virus-infected people and demonstrated that IVA outperforms all oth...Tags: iva, virus, assembly, genome, RNA
1058 days ago
Calling variants in non-diploid systems
The main challenge associated with non-diploid variant calling is the difficulty in distinguishing between the sequencing noise (abundant in all NGS platforms) and true low frequency variants. Some of the early attempts to do this well have been accomplished on human mitochondrial DNA a...Tags: Variant, Prokaryotic, virus, genome, snp, tutorial, galaxy
1054 days ago
Tags: virus, detect, fast, identification
887 days ago