Date: May 21st, 2024
This repository hosts the scripts utilized for generating a de novo assembly of Drosophila melanogaster.
Connor S. Murray
Email: csm6hg@virginia.edu
Contains the scripts used for classifying structural variants (SVs) across NGS data.
- Smoove:
- Smoove used to call SVs across short-read dataset.
Contains associated scripts for de novo assembly of PacBio HiFi reads, scaffolding, and dotplot creation.
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HiCanu:
- De novo assembly software.
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LongStitch:
- Scaffolding of contigs software.
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BUSCO:
- Benchmark universal single-copy orthologous (BUSCO) genes to assess genome completeness.
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Dotplot_DGenies:
- DGenies used to compare sequences with DMel6 genome.