Spiro.pacbio.sorted.cram: PacBio Reads Aligned to Spironucleus Salmonicida Assembly

PacBio sequencing reads mapped to a Spironucleus salmonicida genome assembly consisting of 42 scaffolds. The alignment was performed using blasr v5.3.5 and the resulting BAM file was converted to the CRAM format to reduce file size. The dataset was contributed by Feifei Xu and is listed on the Papers with Code platform.

Use Cases

• Analyze read coverage and mapping quality across the 42 scaffolds of the Spironucleus salmonicida assembly.
• Identify structural variants or mis-assemblies based on the PacBio long-read alignment patterns.
• Benchmark or compare alignment tools and parameters using the provided blasr v5.3.5 mapping results.

Strengths

• Alignment performed with a specific, named tool version (blasr v5.3.5).
• File size was reduced by conversion from BAM to CRAM format.
• Target genome assembly is defined as having 42 scaffolds.

Limitations

• Row count and file size are unknown, which may limit suitability assessment.
• Column-level documentation is absent; field semantics must be inferred after download.
• Last update date is unknown; freshness unverified.

Provenance

Source

Feifei Xu via Papers with Code

Collection Method

PacBio reads were mapped to a Spironucleus salmonicida assembly using blasr v5.3.5, with the output converted to CRAM format.