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Hi,
I'm trying to use `-f` to pass in a .txt file containing the path for each of many sequencing_summary.txt files during `nanopolish -index`.
I keep getting the error "Could not find filename c…
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I'm trying to understand what I can do about these errors:
```
$ tombo resquiggle /Volumes/Macintosh\ HD/Library/MinKNOW/data/reads/Reg_RNA_copy/fast5/pass/0/ /Volumes/Macintosh\ HD/Library/…
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Hi,
First off all thank you for the lovely tool. I am trying to assemble a mammalian genome (~2.4g haploid genome size ). I believe the individual (and the species) we are assembling is not ver…
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I am wondering if Tombo will distinguish the pore model used in sequencing and automatically choose the configuration? RNA sequencing has two pore models used: -200mV and -180mV, what is the default o…
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[example.tar.gz](https://github.com/gringer/bioinfscripts/files/1114987/example.tar.gz)
Dear David,
I have been in touch with your scripts to manipulate raw nanopore sequences (twitter, such a ni…
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Hi,
I've spent quite some time in trying to find the right parameters to run Canu on LSF. I thought I finally had all the parameters (such as mhapThreads, corMemory, etc) such that Canu would run (ha…
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Hi,
I am using the following command:
`./canu -useGrid=0 -p BC05 -d /n/scratch2/dct7/Run11_Canu/BC05_AC347 genomeSize=9000 contigFilter="2 1000 1.0 1.0 2" -nanopore-raw /n/scratch2/dct7/Run11_C…
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Dear canu developers,
as suggested in previous issue, I am using just the error correction step of canu pipeline to obtain a consensus sequence from a set of Nanopore 660bp long amplicon sequences, b…
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Hi, I am using Canu 1.6 to assemble two closely related bacterial genome of 2.5mb from nanopore whole genome sequencing. However, I was able to get a close and circularized for one genome but not the …
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There was discussion on the samtools-dev mailing list about this last year:
http://sourceforge.net/p/samtools/mailman/message/30672431/
The main crux of the discussion there was to reuse the 16bit b…