Pipelines

Exacto’s commands compose into three end-to-end pipelines for long-read analysis. Each page below walks through the inputs, the intermediate files and the final outputs, with links to the commands.

Available Pipelines

Mutant Proteoform Prediction
Call somatic DNA variants and RNA variants from long-read DNA and RNA, link them, and translate the assembled transcripts to mutant proteoforms and peptides.

Variant-aware Transcriptome Assembly
Cluster long RNA reads into transcripts, correct sequencing errors, re-cluster, build one consensus sequence per transcript, restore degraded ends from the reference, and call RNA variants.

Variation Graph Construction
Build individualized genome and transcriptome variation graphs from variant calls.