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Hi Daniel,
I install snpiphy first time today through conda, after installed the process stopped due to lack `sra-tools`, and it's easy fix through `conda install -y sra-tools`. I thought you could a…
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Hi,
I hope it's ok for me to ask for some guidance.
I'm assembling an apox 5gb bacterial genome.
Input Nanopore rapid barcoding kit, run on Minion. Deepbinner -> albacore -> porechop (trim only).
…
thsyd updated
5 years ago
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Hi,
I have been using metacoder to visualize core microbiome as no. of obs (otus), and now I would like to display the core as read count (abundance).
My otu_table is unfiltered, I mean it has non-s…
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As I mentioned, each student will have a "project" that results in a "product". Do you have any preference to what such project is involved with? What is one idea that comes to mind based on the readi…
sr320 updated
6 years ago
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Hello,
I managed to install Canu by following the instructions in release. I downloaded the binary 'canu-1.8.Linux-amd64.tar.xz', then installed with command 'tar -xJf canu-1.8.*.tar.xz'. In terminal…
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Hi there,
The preprint for Distanced - https://www.biorxiv.org/content/biorxiv/early/2018/09/24/423186.full.pdf - has just been released.
Big take-home message on their benchmarking is that DADA…
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Hi:
I used PacBio reads (100X) to assemble 420 mb some plant genome. However, canu 1.8 takes over 1,900 hours to run "ovS". Could someone solve the problem? Many thanks.
My command line:
```
no…
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Hi, I installed canu on a Linux cluster (SLURM) and got an error when running the E.coli (25X) dataset to test the installation.
The command I ran:
```canu -p ecoli -d /scratch/ez82/Ecoli_PacBio…
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Thanks a lot for your efforts developing this promising tool.
I would like to use SLIMM to characterize microbial species composition from various metagenomes.
I do not have any issue to report, …
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I'm running Canu v1.6 on linux through the ont-assembly-polish pipeline (https://github.com/nanoporetech/ont-assembly-polish), on a remote server. The only Canu parameter I changed was useGrid=false. …