Overview

LORA (Long Read Assembly) is a Snakemake pipeline for de novo assembly of long-read sequencing data (PacBio, Oxford Nanopore). It covers the full workflow from raw reads to polished, annotated assemblies, and integrates quality assessment tools including QUAST, BUSCO, CheckM, Bandage, and Sequana coverage analysis.

Global reports

• LORA Report: Per-sample assembly details including coverage, BLAST hits, CheckM, and BUSCO results.

• MultiQC Report: Aggregated QC metrics from all tools across all samples.

Per-sample reports

The table below lists each sample with the number of assembled contigs and links to the QUAST assembly quality report and Icarus contig browser. A link to the Sequana coverage report is included when coverage analysis was performed.

{% for sample, count in samples %} {% if coverage_done %} {% endif %} {% if long_read_sum_done %} {% endif %} {% endfor %}

Sample	Contigs	Links
{{sample}}	{{count}}	FASTA	QUAST	Icarus	Coverage	LongReadSum