Featured Publications
GEM-NET: Lessons in Multi-Institution Teamwork Using Collaboration Software
Gaffney SG, Ad O, Smaga S, Schepartz A, Townsend JP. GEM-NET: Lessons in Multi-Institution Teamwork Using Collaboration Software. ACS Central Science 2019, 5: 1159-1169. PMID: 31404233, PMCID: PMC6661976, DOI: 10.1021/acscentsci.9b00111.Peer-Reviewed Original ResearchSoftware infrastructureMulti-institution teamOpen source codeCollaboration softwareCode editingData sharingSource codeTask managementCustom applicationsCollaborative documentInfrastructureCommunicationMultiple fieldsInternal communicationUsersUniversity campusSchedulingSecuritySharingSoftwareTeamCodeImplementationDocumentsGoal
2016
PhyInformR: phylogenetic experimental design and phylogenomic data exploration in R
Dornburg A, Fisk JN, Tamagnan J, Townsend JP. PhyInformR: phylogenetic experimental design and phylogenomic data exploration in R. BMC Ecology And Evolution 2016, 16: 262. PMID: 27905871, PMCID: PMC5134231, DOI: 10.1186/s12862-016-0837-3.Peer-Reviewed Original ResearchConceptsParallel processingOpen-source software packageBayesian posterior distributionLack of softwareOpen-source programPhylogenetic experimental designProbability of resolutionUser hardwareData explorationData visualizationNext-generation sequence datasetsInformation contentSource programNovel visualizationPosterior distributionBayesian settingAdditional sample dataPower usersDataset partitionsBayesian approachSequence data setsSoftware packageDatasetGenomic information contentSoftware
2011
Getting the Most Out of Your Fungal Microarray Data: Two Cost- and Time-Effective Methods
Mathioni SM, Beló A, Townsend JP, Donofrio NM. Getting the Most Out of Your Fungal Microarray Data: Two Cost- and Time-Effective Methods. Methods In Molecular Biology 2011, 722: 61-77. PMID: 21590413, DOI: 10.1007/978-1-61779-040-9_5.Peer-Reviewed Reviews, Practice Guidelines, Standards, and Consensus StatementsConceptsExpensive softwareData generationMultiple platformsGenomic data generationEfficient waySuch dataPossible informationGenome sequencing technologiesKind of analysisData analysisFungal dataUsersDifferent environmentsMicroarray dataBioinformaticistsCostExperimental costSoftwareProtocolBottleneckPlatformTaskTechnologyDataAcademia