# Reference-guided isoform reconstruction and quantification for long read RNA-Seq data

## Documentation for package ‘bambu’ version 2.0.0

- DESCRIPTION file.
- User guides, package vignettes and other documentation.
- Package NEWS.

## Help Pages

bambu | long read isoform reconstruction and quantification
plotBambu | plot.bambu
prepareAnnotations | prepare annotations from txdb object or gtf file
readFromGTF | convert a GTF file into a GRangesList
transcriptToGeneExpression | transcript to gene expression
writeBambuOutput | Write bambu results to GTF and transcript/gene-count files
writeToGTF | write GRangeslist into GTF file