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MAVIS
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Guidelines for Contributors
Glossary
Background
Background
Literature
Theory and Models
Configuration
Configuration
Getting Started
Resource Requirements
Running the Pipeline
Configurable Settings
Inputs
Inputs
Reference Input Files
MAVIS standard input file format
Supported Dependencies
Outputs
Outputs
Tab Delimited Files
Column Names
Illustrations
Package
Package
Mavis
Mavis
mavis
mavis.align
mavis.assemble
mavis.blat
mavis.breakpoint
mavis.config
mavis.constants
mavis.error
mavis.interval
mavis.main
mavis.util
Annotate
Annotate
Sub-package Documentation
mavis.annotate.base
mavis.annotate.file_io
mavis.annotate.fusion
mavis.annotate.genomic
mavis.annotate.main
mavis.annotate.protein
mavis.annotate.splicing
mavis.annotate.variant
Bam
Bam
mavis.bam.cache
mavis.bam.cigar
mavis.bam.read
mavis.bam.stats
Cluster
Cluster
Sub-package Documentation
mavis.cluster.cluster
mavis.cluster.main
Illustrate
Illustrate
mavis.illustrate.constants
mavis.illustrate.diagram
mavis.illustrate.elements
mavis.illustrate.scatter
mavis.illustrate.util
Pairing
Pairing
Sub-package Documentation
mavis.pairing.main
mavis.pairing.pairing
Schedule
Schedule
mavis.schedule.constants
mavis.schedule.job
mavis.schedule.local
mavis.schedule.pipeline
mavis.schedule.scheduler
Summary
Summary
Sub-package Documentation
mavis.summary.main
mavis.summary.summary
Tools
Tools
mavis.tools
mavis.tools.breakdancer
mavis.tools.chimerascan
mavis.tools.cnvnator
mavis.tools.starfusion
mavis.tools.transabyss
mavis.tools.vcf
Validate
Validate
Sub-package Documentation
mavis.validate.base
mavis.validate.call
mavis.validate.evidence
mavis.validate.main
Tutorials
Tutorials
MAVIS (Full) Tutorial
MAVIS (Mini) Tutorial
mavis.summary.main