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Hello,
I am using mothur (v1.39.5) to analyze MiSeq data related to fish metabarcoding (12S rRNA). I am working off of my schools supercomputer via remote access with a PuTTY. I am currently trying…
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Hello,
I don't know if this is an appropriate place to ask advice on this issue, so forgive me if it's not. I am using mothur to analyze MiSeq data related to fish metabarcoding (12S rRNA). I am w…
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What do you imagine are the first three steps in your class project? Feel free to ask clarifying question in class or using issues..
sr320 updated
5 years ago
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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
5 years ago
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This is a follow up on issue #329.
vsearch's memory footprint when dereplicating is significantly reduced with version 2.8.3. However, one would expect the memory footprint to stay the same when th…
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Here is what I did (version 1.39.5):
_ from about 200k reads of a filtered metabarcoding dataset, extract unique reads using unique.seqs (default parameters)
_ calculate pairwise distances between t…
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I was hoping get OBItools (http://metabarcoding.org/obitools/doc/welcome.html) installed on Albiorix, please?
I tried and got the following error:
```OBITools-1.2.11/bin/python: error while loadin…
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As of commit f366c6becd25f0af492b1575633933efe48c887b there is now a set of gzipped FASTQ files that Jozsef Geml has made available for testing purposes. These are supposed to be processed, roughly, a…
rvosa updated
6 years ago
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It is my understanding that the optional parameter k of edlib.align() avoid unnecessary calculation when comparing 2 very distant strings. I assume the function stops when the number of edits reach th…
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Hi @sckott et al (and @dwinter too),
I just stumbled on the function `ncbi_byid` after it cropped in the r-sig-phylo list.
I'm working on assembling reference libraries for eDNA metabarcoding, …