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Browsing Research Datasets by Subject "Evolutionary Biology"

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Blast2GO GFF file for workflow 2 (BRAKER2), both datasets

Venkatraman, Madhvi X. (The Smithsonian Institution, 2021)

GFF files for dataset 1 (single sample RNA-seq) and dataset 2 (47 sample RNA-seq) using standalone BRAKER2 pipeline (workflow 2)
Dataset: Context-dependent carryover effects of hypoxia and warming in a coastal ecosystem engineer

Donelan, Sarah C.; Ogburn, Matthew B.; Breitburg, Denise L. (The Smithsonian Institution, 2020)

Experimental design and methods described in Donelan et al., Ecological Applications
Kinkajou (Potos flavus) de novo assembly using ALLPATHS-LG from: Whole genome sequencing of procyonids reveals distinct demographic histories in kinkajou (Potos flavus) and northern raccoon (Procyon lotor)

Dikow, Rebecca B. (The Smithsonian Institution, 2020)

Kinkajou ALLPATHS-LG genome assembly
Kinkajou (Potos flavus) de novo assembly using MaSuRCA from: Whole genome sequencing of procyonids reveals distinct demographic histories in kinkajou (Potos flavus) and northern raccoon (Procyon lotor)

Dikow, Rebecca B. (The Smithsonian Institution, 2020)

Kinkajou MaSuRCA assembly.
Kinkajou (Potos flavus) Platanus assembly masked using RepeatMasker from: Whole genome sequencing of procyonids reveals distinct demographic histories in kinkajou (Potos flavus) and northern raccoon (Procyon lotor)

Dikow, Rebecca B. (The Smithsonian Institution, 2020)

Masked kinkajou Platanus genome assembly.
Nucmer alignments and coordinate files used to generate dotplots from: Whole genome sequencing of procyonids reveals distinct demographic histories in kinkajou (Potos flavus) and northern raccoon (Procyon lotor)

Dikow, Rebecca B. (The Smithsonian Institution, 2020)

Nucmer aligmnents and coordinate files used to generate dot plots (https://dnanexus.github.io/dot/).
Pseudochromosome Ragout assemblies and ago files from: Whole genome sequencing of procyonids reveals distinct demographic histories in kinkajou (Potos flavus) and northern raccoon (Procyon lotor)

Dikow, Rebecca B. (The Smithsonian Institution, 2020)

Ragout assemblies and agp files. Genomes were first aligned to the DNAZoo HiC assemblies using progressive Cactus and then pseudochromosomes were built with Ragout.
Raccoon (Procyon lotor) de novo assembly using ALLPATHS-LG from: Whole genome sequencing of procyonids reveals distinct demographic histories in kinkajou (Potos flavus) and northern raccoon (Procyon lotor)

Dikow, Rebecca B. (The Smithsonian Institution, 2020)

Raccoon ALLPATHS-LG genome assembly.
Raccoon (Procyon lotor) de novo assembly using MaSuRCA from: Whole genome sequencing of procyonids reveals distinct demographic histories in kinkajou (Potos flavus) and northern raccoon (Procyon lotor)Untitled Item

Dikow, Rebecca B. (The Smithsonian Institution, 2020)

Raccoon MaSuRCA genome assembly.
Raccoon (Procyon lotor) Platanus assembly masked using RepeatMasker from: Whole genome sequencing of procyonids reveals distinct demographic histories in kinkajou (Potos flavus) and northern raccoon (Procyon lotor)

Dikow, Rebecca B. (The Smithsonian Institution, 2020)

Masked raccoon Platanus genome assembly.
VCF files from: Whole genome sequencing of procyonids reveals distinct demographic histories in kinkajou (Potos flavus) and northern raccoon (Procyon lotor)

Dikow, Rebecca B. (The Smithsonian Institution, 2020)

VCF files produced by GATK for both raccoon and kinkajou genomes.

Browsing Research Datasets by Subject "Evolutionary Biology"

Browsing Research Datasets by Subject "Evolutionary Biology"

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