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The refseq_microbial database target attempts to obtain archaea-chromosome_level and fails:
```
$ make refseq_microbial
.....
Making: refseq_microbial: refseq_microbial
make -f Makefile IDX_NA…
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HELLO:
I'm running canu-1.7.1 on PacBio Sequel data
the command is:
`~/canu-1.7.1/Linux-amd64/bin/canu -correct \-p peking -d peking-auto \corThreads=30 gnuplotTested=true \genomeSize=1200m minRead…
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Dear,
I want use the rBlast package to Blast a fast file of non microbial sequence. I already have the sequences from genbank downloaded. I have two question.
1. How can I use this file to blast…
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I am trying to assemble a viral genome after correction of the Pacbio long sequences by Illumina short reads using LoRDEC. During the assembly, I have gotten an error such as 'Bogart failed'. Could yo…
tay45 updated
6 years ago
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I am new to the field of gut microbiome data analysis. I did 16S rRNA seq (V4 region) for DNA extracted from human stool samples. I saw that there were close to 24 000 reads present in my negative con…
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After Canu was downloaded from https://github.com/marbl/canu.git and installed on Ubuntu-based desktop computer as instructed, I tried to check Canu program with test data from http://nanopore.s3.clim…
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I am trying to run the squashed option in Canu. And when I get to the unitigging step, I get errors in 2 overlap jobs.
Canu script for job submission in PBSPro
```
#!/bin/bash
#PBS -P RDS-FAE-OS…
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I ran into an unexpected mismatch and, if possible, I would like to understand what happened. I clustered my OTUs with an external software and obtained a simplified fasta (in terms of number of entri…
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Hi, anybody would help me?
I have a problem with canu. I build a bash file, then I use "qsub" command to submit this task to our server. It always fails "Mhap overlap jobs failed, tried 2 times, givi…
KSL22 updated
6 years ago
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Since 1.40.5 I got .trim.qual files after a trim.seqs command formatted back to ASCII, although the input .qual file was already a translation of ASCII to integer Phred score.
So, any further comma…