LRAA - Long Read Alignment Assembler
Isoform discovery and quantification based on long read isoform sequence alignments (PacBio or ONT).
LRAA has three modes, described below:
- De novo (reference annotation-free) isoform identification and quantification
- Reference-guided isoform detection and quantification
- Isoform expression quantification only
Isoform Discovery
De novo Reference Annotation-free Isoform Discovery (and quantification)
Given a bam file from aligned reads (
This is a companion discussion topic for the original entry at github.com/MethodsDev/LongReadAlignmentAssembler/LRAA-cell_cluster_guided