---
author: Sam White
toc-title: Contents
toc-depth: 5
toc-location: left
date: 2018-04-30 18:53:44+00:00
layout: post
slug: assembly-stats-geoduck-hi-c-assembly-comparison
title: Assembly Stats - Geoduck Hi-C Assembly Comparison
categories:
  - 2018
  - Geoduck Genome Sequencing
tags:
  - assembly
  - geoduck
  - Panopea generosa
  - QUAST
---

Ran the following Quast command to compare [the two geoduck assemblies provided to us by Phase Genomics](https://robertslab.github.io/sams-notebook/posts/2018/2018-04-21-data-management-geoduck-phase-genomics-hi-c-data/):


    
    <code>/home/sam/software/quast-4.5/quast.py \
    -t 24 \
    --labels 20180403_pga,20180421_pga \
    /mnt/owl/Athaliana/20180421_geoduck_hi-c/Results/geoduck_roberts\ results\ 2018-04-03\ 11\:05\:41.596285/PGA_assembly.fasta \
    /mnt/owl/Athaliana/20180421_geoduck_hi-c/Results/geoduck_roberts\ results\ 2018-04-21\ 18\:09\:04.514704/PGA_assembly.fasta</code>





##### Results:



Quast Output folder: [results_2018_04_30_11_16_04/](https://owl.fish.washington.edu/Athaliana/quast_results/results_2018_04_30_11_16_04/)

Quast report (HTML): [results_2018_04_30_11_16_04/report.html](https://owl.fish.washington.edu/Athaliana/quast_results/results_2018_04_30_11_16_04/report.html)

![](https://owl.fish.washington.edu/Athaliana/20180430_quast_pga_assemblies.png)

The two assemblies are _nearly_ identical. Interesting...