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## Short description of the problem
The function `anvi-cluster-contigs` fails after commit 0d4a507.
## anvi'o version
```
anvi-self-test --version
Anvi'o ...................................…
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I'm using SwiftOrtho to cluster 4 genome gene model data sets (human, octopus, oyster, and anemone). I used the command line below but I find zero core and zero shared genes - so I'm wondering what I …
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Hi,
I am using Roary 3.12 on ~20,000 GFF files with 12 threads and 900GB of RAM. "roary" has been running for 9 days. I was wondering if there is any way or setting I can use to improve the running…
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https://mp.weixin.qq.com/s/5YUaUFc72Q2aiZVw8vX_Zw
ixxmu updated
2 years ago
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Hi, I got an error as below with: emapper.py -i in.fasta -o ./in.fasta --temp_dir temp/ -m diamond --cpu 8 --matrix BLOSUM62 --seed_ortholog_evalue 1e-5 --dmnd_db /database/eggNOG_5.0.2/eggnog_protein…
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Hi,
Recently I finished pangenomics analysis on my 124 MAGs. When I start the interactive mode the process gets killed at initialize gene clusters (on my 8 core i7-16GBram PC). If I use **--skip-in…
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Hi all,
I want to create a graph combing the phylogenetic tree, fasta sequence, and some phenotypic traits.
When I first tried msaplot() to align the fasta sequence with the tree., there is no iss…
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Both de-novo and map-to-pan start the same way - download -> RPP -> assembly
Currently there is code duplication. Need to create a pipeline that will perform these steps, outside the pan genome pipel…
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##Data Sets
**CMG**
**CCDG**
**eMerge**
* Electronic Medical Records and Genomics Network
**CSER**
* Clinical Sequencing Evidence-Generating Research
Human Pan Genome Reference Consortium
**UD…
kozbo updated
3 years ago
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Hi @alesssia,
Thanks for putting YAMP together and maintaining it. I cloned the repository on Ubuntu 20.04.2 (YAMP commit eae0e05c) but got a crash with unhelpful error message when running the tes…