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MAVIS
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MAVIS
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Install Instructions
Migrating
Background
Background
Theory and Models
Literature
Inputs
Inputs
Reference Input Files
MAVIS standard input file format
Non-python Dependencies
Supported Dependencies
SV Callers
Outputs
Outputs
Tab Delimited Files
Column Names
Illustrations
Configuration
Configuration
Getting Started
Resource Requirements
Running the Pipeline
Configurable Settings
Tutorials
Tutorials
MAVIS (Mini) Tutorial
MAVIS (Full) Tutorial
Annotation Only
Guidelines for Contributors
Package
Package
Mavis
Mavis
mavis/init
mavis/breakpoint
mavis/config
mavis/constants
mavis/error
mavis/interval
mavis/main
mavis/overlay
mavis/types
mavis/util
Annotate
Annotate
Sub-package Documentation
mavis/annotate/base
mavis/annotate/constants
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
Convert
Convert
mavis/convert/init
mavis/convert/arriba
mavis/convert/breakdancer
mavis/convert/chimerascan
mavis/convert/cnvnator
mavis/convert/constants
mavis/convert/starfusion
mavis/convert/straglr
mavis/convert/transabyss
mavis/convert/vcf
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
Summary
Summary
Sub-package Documentation
mavis/summary/constants
mavis/summary/main
mavis/summary/summary
Validate
Validate
Sub-package Documentation
mavis/validate/align
mavis/validate/assemble
mavis/validate/base
mavis/validate/blat
mavis/validate/call
mavis/validate/evidence
mavis/validate/gather
mavis/validate/main
Glossary
mavis/summary/main