| Name | Category | Organism | Program, Pipeline Name or Method Name | Source Name | Download link | |
|---|---|---|---|---|---|---|
| Genome Assembly | Genome structure | Haliotis rufescens v1 (Red abalone) | MaSurCA | Halruf.fasta | halruf.fasta | |
| Genome Annotation | Genes | Haliotis rufescens v1 (Red abalone) | MAKER2 | Halruf.gff3 | halruf.gff3 | |
| SNPs from Black,Green,Pinto,Pink,Red and White abalone | Related species | Haliotis rufescens v1 (Red abalone) | GATK | SNPs_BlkGrnPntPnkRedWht_GBE2018.vcf renamed from snphylo.output.filtered.sorted.vcf | snphylo.output.filtered.sorted.idcorrected.vcf.gz | View on JBrowse |
| Haliotis rufescens protein sequences | Other | Haliotis rufescens v1 (Red abalone) | augustus and emboss | Halruf.fasta and Halruf.gff3 | halruf_proteins.fasta | |
| Draft Braker2 Gene Models | Genes | Haliotis sorenseni v2 (White abalone v2) | Braker2 with Uniprot Mollusca and Red Abalone proteins | Rick Preliminary Annotation | orderedallannotationssortedformattedgff.gz | View on JBrowse |
| FreeBayes SNPs | Related species | Haliotis sorenseni v2 (White abalone v2) | freebayes snps filtered by snphylo | Rick Small VCF test | filteredsnps.vcf.gz | View on JBrowse |
| InterproScan Gene Annotations | Genes | Haliotis sorenseni v2 (White abalone v2) | Braker2 genes with Interpro annotations | Rick Masonbrink | interproannotations.gff3.gz | View on JBrowse |
| Repeat Modeler Repeats | Genome structure | Haliotis sorenseni v2 (White abalone v2) | Repeat Modeler, Repeat Masker | Rick Masonbrink | reformatrepeatsforjbrowsedisplay_sorted_formatted.gff_.gz | View on JBrowse |
| H_sorenseniV2_assembly.fasta | Genome structure | Haliotis sorenseni v2 (White abalone v2) | Flye (2.6-release), pilon-1.22 | White abalone genome assembly | h.sorensenigenomepilon3.pilon_.fasta | |
| Haliotis_fulgens_assembly.fasta | Genome structure | Haliotis fulgrens v1 (Green Abalone) | nanoplot, downpore, flye, racon, medaka | HalFul_medaka.FINAL.fasta | halful_medaka.final_.fasta | |
| Genome Annotation (Loaded) | Genes | Haliotis rufescens v1 (Red abalone) | MAKER2 | Halruf.gff3 | Halruf.gff3.gz | View on JBrowse |
| Genome Assembly | Genome structure | Haliotis sorenseni v3 (White abalone v3) | Juicer/3ddna/juicebox | Rick Masonbrink | SoftmaskedFilteredH.sorenseniGenome.fasta | |
| Haliotis cracherodii Pseudomolecule v1 | Other | Haliotis cracherodii v1 (Black Abalone) | Flye, Juicer/3ddna/juicebox | Rick Masonbrink | SoftmaskedFiltered2Halcra_medaka.FINAL.fasta | |
| Genome Annotation -- outdated | Genes | Haliotis sorenseni v3 (White abalone v3) | placeholder | OrderedFunctionalAnnotations.gff3.gz | View on JBrowse | |
| Gene Predictions | Genes | Haliotis sorenseni v3 (White abalone v3) | Braker, Mikado, Star, Portcullis | Rick Masonbrink | OrderedFinalMikadoGFF.gff3.gz | View on JBrowse |
| Haliotis fulgrens Pseudomolecule Genome | Genome structure | Haliotis fulgens v2 (Green Abalone) | Juicer/3ddna/juicebox | Rick Masonbrink | SoftmaskedFilteredHalful_medaka.FINAL.fasta | |
| Gene Predictions | Genes | Haliotis fulgens v2 (Green Abalone) | Braker, Mikado, Star, Portcullis | Rick Masonbrink | FulgensAnnotation.gff3.gz | View on JBrowse |
| Gene Predictions | Genes | Haliotis cracherodii v1 (Black Abalone) | Braker, Mikado, Star, Portcullis | Rick Masonbrink | CracherodiiAnnotation.gff3.gz | View on JBrowse |