Tapestry

Tapestry validates and refines small eukaryotic genome assemblies derived from long-read sequencing by producing analytical reports for post-assembly assessment.

Key Features:

• Report generation: Produces detailed reports that summarize validation metrics and enable sorting and filtering of contigs.
• Analytical metrics: Calculates GC content, identifies telomere sequences, and computes read depth distributions.
• Alignments: Performs contig-to-contig and read-to-contig alignments to reveal structural relationships and assembly inconsistencies.
• Genomic element identification: Identifies complete chromosomes, potential symbiont contigs, alternative haplotypes, and other complex genomic features.
• Assembly error detection: Facilitates detection and support for correction of potential assembly errors and regions requiring further refinement.

Scientific Applications:

• Small eukaryotic genome validation: Validates and refines assemblies of small eukaryotic genomes generated with long-read sequencing.
• Chromosome and structural resolution: Supports identification of complete chromosomes and structural features using telomere detection and alignments.
• Symbiont and contaminant identification: Identifies contigs originating from symbionts or other non-target genomes.
• Haplotype resolution: Distinguishes alternative haplotypes and assists assessment of heterozygous regions in assemblies.
• Assembly quality improvement: Guides detection and correction decisions to improve overall assembly integrity.

Methodology:

Analyzes long-read sequencing data to compute GC content variations, detect telomere sequences, calculate read depth distributions, and align contigs and reads against reference genomes or within the assembly to identify inconsistencies.