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I am using funannotate 1.8.9 version installed with conda (mamba).
"funannotate compare -i Genome_one.gbk Genome_two.gbk Genome_three.gbk -o compare --cpus 4 --outgroup botrytis_cinerea.dikarya
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Hi there,
I really like this concept. However, I am trying to make sense of my results. After plotting PC1 and PC2 for Ceratocystis fimbriata proteome. I observed clustering with very un expected …
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Hi Ben,
Apologies for the multiple questions. I ran singlem separately on my metagenome reads and my MAGs. I then separated each marker and clustered them using the default species-level identity. …
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This is related to #232 I was getting on my laptop - the `"Bio.Alphabet has been removed from Biopython` error. You had suggested trying version `2.2.8` so I'm pulling the latest master from github to…
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Hi!
Thank you for this amazing tool! I'm really impressed at how fast it complete the task :) I built a pangenome with 150 Vibrio parahaemolyticus isolates, but was confused about interpreting diff…
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...takes too long to complete and fails.
1. Put a limit on the input for clustering and show a clear message to the user.
2. See if we can deploy clustering on better machine.
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Hi,
I am trying to run Piggy for a couple of closely related bacterial genomes but the analysis fails during creation of the cluster files with “Cannot open output file: piggy/cluster_intergenic_fil…
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With the exception of added redundancies and computational time for motif_ix, is there anything wrong with doing this?
```
library(BSgenome.Hsapiens.UCSC.hg18)
library(chromVARmotifs)
library(TFB…
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I successfully analysed the example files with RunTheta, however when I tried to analyse my sample it produces an error. I have the normal and primary tumour whole exome sequencing bam files. I create…
SNRNS updated
6 years ago
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**Describe the issue**
I'm not sure if these are a singular problem or a series of problems. FWIW, I'm doing this on SLURM.
1. LtrPipeline: GenomeTools failed to run ltrharvest. Error code: 65536
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