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Hi
I got a core dump at the consensus stage of unitigging. I'm running Canu from within Conda, on a single large (144 CPU / 1.5TB RAM) machine running CentOS6.7.
I'm also kinda doing a hacky thi…
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Hi, I'm running MinIONQC but have noticed that not all graphs generate. I've attached a screen shot of my terminal window. Any help would be great. I'm not terminal or R savvy so maybe its something s…
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Hi @anbrooks @belgravia
I tried to run the flair pipeline on my MinION RNAseq dataset. I have faces some issues.
1. while trying align I have came across the following error
> [ERROR] unknow…
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Hi I am running the following on my MiniKNOW (albacore) fast5 files from a direct RNA seq run but Poreplex errors out:
poreplex -i . -o /prod/Nanopore_Seq_Data/20181001_Sept17_18_2018_Trimmed_Fastq/ …
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The CANU 1.8 command that I use is
```
#!/bin/bash
#PBS -V
#PBS -N Assembly_SE3
#PBS -q batch
#PBS -l nodes=1:ppn=16
#PBS -l walltime=1000:00:00
#PBS -l mem=100g
#PBS -M saila.vishwanathan@e…
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Hello Canu Team,
I am having an issue at the overlap step. I am trying to assembly an e coli genome from MinION reads. The command and error is below.
`canu -p 551_17_selected -d 551_17_sele…
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Hi there,
This is a semi-automated message from a fellow bioinformatician. Through a GitHub search, I found that the following source files make use of BLAST's `-max_target_seqs` parameter:
- [cons…
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Hello,
in my slurm config there is a partition with name "batch" containing 11 nodes with 20 cores/128G per node
i use the command
canu -p seabream useGrid=true gridOptions="-p batch" -d seabre…
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I have been trying to generate an hybrid assembly using Pacbio reads and Nanopore reads with CANU 1.8.
The slurm commands that i use is this :
```
#!/bin/bash
#PBS -V
#PBS -N Assembly_SE3
#PBS -…
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Hi,
I aligned some nanopore cDNA data using minimap2. It's human samples infected with a retrovirus. I aligned against a custom genome where the viral genome is used as an additional chromosome. Th…