ASCIIGenome: Text only genome viewer!

ASCIIGenome is a genome browser based on command line interface and designed for console terminals.

Contents:

• Description
  • Getting help
  • How to cite
  • Credits
• Installation
  • Quick start
  • With conda
  • With Homebrew
  • A little more detail
  • Compiling the source code
• Input and output
  • Input file formats
    • Handling large files
  • Setting a genome
    • Reference sequence
  • Output
    • Formatting of reads and features
    • Title lines
  • Saving screenshots
• Usage
  • Quick start
  • Interactive commands
• Examples
  • Video clips
  • Why the command line
  • Open and browse
  • Finding & filtering stuff
    • Advanced filtering with awk
  • Batch and non-interactive mode
  • Finding sequence motifs
• FAQ and miscellanea
  • Can I change colour theme / Can I use my configuration?
  • Can I turn off case sensitivity?
  • Why reads and coverage in bam tracks sometimes disappear?
  • Can I execute multiple commands inside -x/--exec or at the command prompt?
  • How can I print the header of a VCF file?
• Command reference
  • Navigation
    • goto
    • INT
    • PERCENT
    • plus +
    • minus -
    • f - forward
    • b - backward
    • ff
    • bb
    • zi
    • zo
    • extend
    • l - left
    • r - right
    • p
    • n
    • next
  • Find
    • find
    • seqRegex
    • bookmark
  • Display
    • grep
    • awk
    • featureColorForRegex
    • hideTitle
    • genotype
    • editNames
    • dataCol
    • print
  • Alignments
    • readsAsPairs
    • filterVariantReads
    • rpm
    • samtools
    • BSseq
  • General
    • setGenome
    • setConfig
    • explainSamFlag
    • show
    • recentlyOpened
    • open
    • reload
    • dropTracks
    • orderTracks
    • posHistory
    • history
    • save
    • sys
    • q
    • h

Indices and tables

• Index
• Module Index
• Search Page