browser

Documentation

Overview

Package browser contains command line visualization tools for genomic information.

Index

• func MultiFaVisualizer(infile string, outfile string, start int, end int, noMask bool, lineLength int, ...)
• func PFaVisualizer(infile string, outfile string, start int, end int, startOfAlignment bool, ...)

Functions

func MultiFaVisualizer

func MultiFaVisualizer(infile string, outfile string, start int, end int, noMask bool, lineLength int, endOfAlignment bool)

MultiFaVisualizer produces command line visualizations of multiFa format alignments from a specified start and end position. Can be written to a file or to standard out. Includes noMask and lineLength formatting options as bools.

func PFaVisualizer

func PFaVisualizer(infile string, outfile string, start int, end int, startOfAlignment bool, endOfAlignment bool, sigFigs int, decimalPlaces int, lineLength int, seqName string)

PFaVisualizer produces command line visualizations of pFasta format alignments from a specified start and end position. Can be written to a file or to standard out. Includes lineLength formatting option as int. If 0 sig figs or 0 decimal places, returns full probability There will be slight floating point errors in the last (or last two) places