2023
ILIAD: a suite of automated Snakemake workflows for processing genomic data for downstream applications
Herrick N, Walsh S. ILIAD: a suite of automated Snakemake workflows for processing genomic data for downstream applications. BMC Bioinformatics 2023, 24: 424. PMID: 37940870, PMCID: PMC10633908, DOI: 10.1186/s12859-023-05548-x.Peer-Reviewed Original ResearchConceptsRaw genomic dataSoftware toolsHigh-performance computing clusterOwn big dataRaw data typesVariant call format filesOpen-source suiteBioinformatics software toolsDownstream applicationsDocker containersGenomic dataLocal machineComputing clusterBig dataConfiguration filesJob executionWindows platformData workflowIntermediate filesSingle commandFormat fileReproducible workflowsVCF filesData typesStorage limitations
2019
VCF‐Server: A web‐based visualization tool for high‐throughput variant data mining and management
Jiang J, Gu J, Zhao T, Lu H. VCF‐Server: A web‐based visualization tool for high‐throughput variant data mining and management. Molecular Genetics & Genomic Medicine 2019, 7: e00641. PMID: 31127704, PMCID: PMC6625089, DOI: 10.1002/mgg3.641.Peer-Reviewed Original ResearchConceptsWeb-based visualization toolGraphical interfaceCentralized wayVisualization toolsVCF filesVariant call format filesInteractive graphical interfaceUse graphical interfaceLittle bioinformatics backgroundVariant dataData miningWeb-based analysisFile systemGenetic variant dataProgramming skillsFiltering rulesBioinformatics backgroundFormat fileLocal deploymentProgramming codeInteractive analysisUsersVariant informationFilesVariant annotation
2012
VarB: a variation browsing and analysis tool for variants derived from next-generation sequencing data
Preston M, Manske M, Horner N, Assefa S, Campino S, Auburn S, Zongo I, Ouedraogo J, Nosten F, Anderson T, Clark T. VarB: a variation browsing and analysis tool for variants derived from next-generation sequencing data. Bioinformatics 2012, 28: 2983-2985. PMID: 22976080, PMCID: PMC3496337, DOI: 10.1093/bioinformatics/bts557.Peer-Reviewed Original ResearchConceptsNext-generation sequencing dataUser-defined groupsGenomic regionsVariant call format filesSingle nucleotide polymorphismsDrug resistance genesSequence dataSequencing dataStructural variantsImportant antigenicSequence file formatsInformative markersPlasmodium falciparumDifferent continentsFile formatFormat fileUser manualReal timeAnalysis toolsGenesVariantsDeletionPolymorphismVarBFalciparum
This site is protected by hCaptcha and its Privacy Policy and Terms of Service apply