-
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…
-
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…
-
Hi Stephen,
I want to change the representative genome used for calling SNPs for one of the species. I just wanted to confirm that the only two files that need to be updated using info from PATRIC …
-
Hi,
I am trying to run PAPRICA on a linux server.
I have installed all the dependencies, but when I try to run ```./paprica-run.sh test.bacteria bacteria``` I get the following error:
```
pplacer…
-
Hi again,
I got to complete my test run with the dataset from one of my replicate samples but based on the description of the outputs from the `graft` option in the [wiki](https://github.com/geronimp/…
-
```
ben@u:~/git/graftM$ bin/graftM graft --graftm_package test/data/mcrA.gpkg/ --forward test/data/mcrA.gpkg/mcrA_1.1.fna test/data/mcrA.gpkg/mcrA_1.2.fna --output t --force; cat t/combined_count_tabl…
wwood updated
9 years ago
-
So far, the hardest part about writing the compiler for Alloy is naming it. As mentioned in issue #90, Alloy is already an existing language. I also said that I would change it by the time the languag…
-
This one is thanks to @cmccoy, who found a [paper](http://www.people.fas.harvard.edu/~ballen/NewPhylogenetic.pdf) describing a generalization of Shannon entropy to the phylogenetic context.
It's ver…
-
I would like to be able to use voronoi on phylogenetic trees directly as well, rather than having to go through placement and a reference package.
Some set of sequence names would be specified via a …
-
PhyloSift run information printed into the Krona report is currently obscuring the information about reads placed in the upper right hand corner (see screenshot below from run that finished on our v1.…