The geoduck genome assembly started 20180405 completed this weekend.
This assembly utilized the BGI data and all of the Illumina project data (NMP and NovaSeq) with a kmer 101 setting.
I ran Quast to gather some assembly stats, using the following command:
python /home/sam/software/quast-4.5/quast.py -t 24 /mnt/owl/Athaliana/20180405_sparseassembler_kmer101_geoduck/Contigs.txt
Quast output folder: results_2018_04_15_13_45_03/
Quast report (HTML): results_2018_04_15_13_45_03/report.html
I’ve embedded the Quast HTML report below, but it may be easier to view by using the link above.
from Sam’s Notebook https://ift.tt/2EOBsT5
So last week was unfortunately not as productive as I had planned as a result of some dog-sitting shenanigans. So, to help myself get back on top of things, I’m making a list of what I want to and will accomplish this week. Firstly, tomorrow I have a presentation in my FISH 511 class, so I will be focusing on that today and tomorrow. The rest of the week will be as follows:
- Finish Qubit
- Finish FINAL RNA isolation of the sub-group of samples I selected a while back. The remaining samples to be isolated are the samples from the three crabs that survived the warm treatment so I cannot mess up.
- Organize spreadsheets
- Organize OWL (add READMEs)
- Continue organization from day before
- Edit and publish Crab Mtg #2 (S1 Ep 5)
from Grace’s Lab Notebook https://ift.tt/2IU5mrC