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Job number: 51c1d012-c8ef-4976-ae46-7ab1286c06d1
I submitted a "full spades" assembly with the following P3 command:
p3-submit-genome-assembly --recipe full_spades --srr-id SRR1635127
/jdassem…
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Hi,
I am trying to run masurca_scaffold.sh using two pacbio assemblies generated from some other assembler. I am using main assembly (closest to the estimated genome size) as -r and another assembl…
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Hi Seb,
I was recently reviewing some work from a lab where a student had diligently sought to find the best Kmer value for a Ray assembly across a large number of genomes. Despite their efforts in…
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We often get asked this. Users have compared to reference using Mauve and know how the contigs are ordered. They would like to be able to do this in PATRIC without having to do the manual, tedious p…
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Hi, we have noted that assemblies generated with Flye very frequently introduce variants that are not supported by the reads, particularly at highly repetitive regions (but also in others as well). On…
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i am running a de novo genome assembly on some data provided to me. when running spades i am getting the following error
== Error == system call for: "['/share/apps/centos7/spades/3.11.1/bin/spades'…
C-And updated
6 years ago
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Hi! I installed AGB via conda, and then ran my code as followed:
`agb.py -i /barcode01/flye/ --assembler=Flye -r reference.fasta`
and I got these
```
Running QUAST...
No information about …
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Hi,
I'm trying to improve assembly quality of my genomes by applying Unicycler to the output of the Flye assembler (https://github.com/fenderglass/Flye).
I've tried two different ways, using the…
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### Description of bug
Hey I have been trying to run spades
This is the command i used
spades.py --only-assembler -o SPADES_OUT -1 S17_Trimmed_R1.fq.gz -1 S46_Trimmed_R1.fq.gz -1 S62_Trimmed_R1.f…
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Hi,
I wish to confirm that the LHE_COVERAGE parameter is the estimated coverage of long reads given to the assembler. Currently its description is difficult to interpret.