AltAnalyze
  • Home
  • About Us
  • Contact Information
  • Introduction
  • Running AltAnalyze
  • Algorithms
  • Using R with AltAnalyze
  • Software Infrastructure
  • Building AltAnalyze Annotation Files
  • Evaluation of AltAnalyze Predictions
  • Analysis of AltAnalyze Results DomainGraph
  • References
  • FAQ
  • All Wiki Pages
    • Adding a New Species for Gene Expression Analysis #
    • AdjFoldChange
    • AffyExonArray
    • AffyGeneArray
    • AltAnalyze Installation Instructions
    • Introduction #
    • Working with AltAnalyze Offline #
    • AltAnalyzeStatistics
    • Introduction #
    • AlternativeOutput
    • AlternativePolyadenylation
    • AltExonViewer
    • AltExpression
    • AltInteract
    • AltMouse
    • AltResults
    • What To Do After Getting Alternative Exon Results? #
    • What To Do After Getting Gene Expression Results? #
    • AnnotateExternal
    • Annotations
    • Introduction #
    • ArrayNormalization
    • ASAnnotations
    • Building a Dataset Exon Database for BEDTools #
    • BEDTools
    • BioPython
    • BioScope
    • BuildingDatabases
    • cellHarmony
    • CitingArticles
    • Combat
    • CommandLineMode
    • CommandLinesClassification
    • CommandLinesClustering
    • CommandLinesFileComps
    • CommandLinesGOElite
    • CommandLinesWorkflows
    • CompatibleArrays
    • CompatibleOS
    • ConceptIntroduction
    • Constitutive vs all
    • CrossHybProbesets
    • Introduction #
    • DBaseInstallationError
    • Deviation Value Splicing-Index Statistic #
    • DGIntronMapping
    • DistalExonRegion
    • DomainAnalysis
    • DomainGraph
    • DomainGraphNonExon
    • Download Instructions for FASTQ Data #
    • Introduction #
    • Introduction #
    • EnsMart62
    • EventCall
    • ExonArray
    • ExonBED
    • ExonMappings
    • ExonRegionIDs
    • ExonVsGene
    • ExpressionInput
    • ExpressionOutput
    • Major Features in AltAnalyze #
    • Feature Requests #
    • FeaturesToImplement
    • FilteringData
    • FIRMA Analysis in AltAnalyze #
    • FullDatasets
    • GeneArray
    • GeneArrayCSVForExon
    • Calculating Gene Expression From Exon Arrays #
    • Introduction #
    • GO-Elite Analysis in AltAnalyze #
    • GOEliteDefault
    • GraphingExonData
    • GroupsAndComps
    • Heatmaps
    • hGlue
    • ICGS
    • Identifier Translation in AltAnalyze #
    • AltAnalyze Interactive Results Viewer
    • JAY
    • JunctionArray
    • JunctionArrays
    • JunctionBED
    • Kallisto Splice
    • Professional Biosketch - Kristina Hanspers #
    • LibraryFiles
    • **Lineage Profiler Analysis Program** #
    • LinearRegression
    • Creating Groups and Comps Outside AltAnalyze #
    • MarkerFinder
    • Metabolomics
    • ModeratedTest
    • Multi Lineage Prediction
    • MultipleComparisons
    • Multithreaded Analysis in AltAnalyze #
    • Professional Biosketch - Nathan Salomonis #
    • NathansDullBlade
    • NetAffx
    • NetPerspective
    • NetworkVisualization
    • News and Updates #
    • Instructions for Obtaining RNASeq Input Files #
    • OfflineSupport
    • OppositeMappings
    • Introduction #
    • PathwayAnalysis
    • PathwayVisualizaton
    • PCA
    • PCBC C4 compendium
    • Useful Extensions to Consider #
    • PredictGroupsComps
    • ProteinDirectionIndicator
    • Proteomics
    • Installing and Running AltAnalyze via pip install
    • QualityControl
    • RawSpliceData
    • RequiredFiles
    • ResultsVerification
    • ReturnAll
    • Introduction #
    • RNASeq
    • Sample Junction BED files #
    • RNASeqCommandLine
    • RNASeqExpressionCutoffs
    • RNASeqExpressionNorm
    • RNASeqFoldsAndExpression
    • RPKMCalculation
    • Performing GO-Elite within AltAnalyze #
    • Running AltAnalyze from Source Code #
    • SampleClassification
    • ScoringMethod
    • setBioPython
    • SetPythonPATH
    • SetRPath
    • SpliceVisualization
    • SplicingForAnyPlatform
    • StandAloneDependencies
    • StartingDG
    • SubgeneViewer
    • SupportedSpecies
    • TableComparison
    • TopHat
    • TranscriptClusterCenteredResults
    • Tutorial 3 - Analyzing RNASeq Alternative Exons & Junctions #
    • Tutorial 2 - Analyzing Splicing Data #
    • Tutorial 4 - *De Novo* Identification of Gene-Sample Clusters #
    • Tutorial 1 - Analyzing Conventional Microarrays #
    • AltAnalyze Tutorial Videos #
      • AltAnalyze Tutorial Videos
      • AltAnalyze Workflow Tutorials (GUI)
      • AltAnalyze Independent Tools (GUI)
      • AltAnalyze Command Line Functionality
    • UniProt
    • UpdateHistory
    • VennAnalysis
    • WikiPathways
    • YourComparison
    • YourExperiment
    • YouTubeVidoes
 
AltAnalyze
  • Docs »
  • All Wiki Pages »
  • AltAnalyze Tutorial Videos #
  • Edit on GitHub

AltAnalyze Tutorial Videos

See all videos here

AltAnalyze Workflow Tutorials (GUI)

Proceed through the following tutorials to analyze data for the indicated platform

Tutorial 1 - Analyzing Conventional Microarrays

Tutorial 2 - Analyzing Splicing-Sensitive Arrays

Tutorial 3 - Analyzing RNA-Seq Exons and Junctions

Tutorial 4 - De Novo Identification of Sample Groups

AltAnalyze Independent Tools (GUI)

Simple and fast single use research tools available via the Additional Analyses menu:

  • Expression Clustering
  • Principal Component Analysis
  • Gene-Set Enrichment Analysis
  • Pathway Visualization
  • Network Analysis and Visualization
  • Alternative Exon Visualization
  • Sample Classification
  • Venn Diagram Creation
  • Table Merging
  • ID System Translation

AltAnalyze Command Line Functionality

Running AltAnalyze from the Command-Line

Next Previous

Built with MkDocs using a theme provided by Read the Docs.