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Hellow, I used the "checkm lineage_wf" command and I'm confused about the "Marker lineage" column in the result. For example, the result of one of my bin is "s__algicola (UID2846)", but there are man…
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I followed the pre-requisite installation instructions and received several errors while running the make commands :
_cd epa-ng-0.2.1-beta-dev
make_
Running cmake
CMake Warning (dev) at CMa…
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Hi there,
I'm interested in making a conda recipe for PaPaRa (see discussion here: https://groups.google.com/forum/#!category-topic/phylogenetic-placement/cdUsCs5izr8). Is there a compressed folder…
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### Summary
- What does this package do? (explain in 50 words or less):
This package helps users to build a reasonable starting phylogeny for phylogenetic analysis.
In particular, this package…
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I got an error at the last step when I ran one of my samples using graftM, while the other samples were fine. Can anyone advise me about the issue? Thanks
05/17/2018 04:10:32 PM INFO: Working on SB…
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Hi,
I'm trying to create a phyloseq object that contains an OTU table and a phylogenetic tree downloaded from the SILVA database. I've followed the very helpful dada2 tutorial to create the OTU tab…
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Hello,
I am trying to run checkm merge on some data but it returns an empty merger.tsv file, while all the other output files look normal. The bins I'm trying to merge as supposed to belong to the …
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Hi Benjamin,
On a previous issue, I was asking you how to generate the data frame that you get when you do pair-end sequences using:mergers
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Hi there,
I'm using the latest version of epa-ng and am getting this error when I try to run it:
```
terminate called after throwing an instance of 'std::runtime_error'
what(): Treeparsing …
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Dear Ben,
I've been running CheckM and RefineM on my metagenomic bins, and after a discussion with Donovan Parks regarding abundance estimation, he recommended your SingleM software. I think this l…