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Hello,
I am trying assign about 800 microviruses to the families you suggested and ran MOU-UP with all their proteins. It ran through without errors but I can't make sense of the output and would a…
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Similar to the issue posted in #58. I have tried removing any orthogroups where a gene only occurs in one species, and I've also tried a more extreme case where I removed a group if any species did no…
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(METABOLIC-v4) lizhihua@lizhihua-T640:/media/lizhihua/software/METABOLIC-v4/METABOLIC$ ./run_to_setup.sh
tar (child): Accessory_scripts.tgz: Cannot open: No such file or directory
tar (child): Erro…
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Hi, I have used supplementary material to run WGD. I am able to rum till wgd syn without any issue but in the wgd_syn results only dotplot as well as ks_ancjors.tsv files are empty. I have also tried …
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Similar to Issue #116, I've noticed that cluster results vary between runs even with input order sorting. It seems to be related to multi-threading in `mmseqs`, particularly the step that selects the …
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Hi
I am trying to run the following command to assign taxonomy to a set of MAGs (on the cluster ):
gtdbtk identify --genome_dir /home/naima17/scratch/cholera_nov2020/complete_only_MAGs/dereplicate…
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Hello,
I'm encountering an issue where the `anchorpoints.txt` file generated by the `wgd syn` command is empty after execution. Here’s the specific command I ran:
`wgd syn --feature CDS --attrib…
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Hi Kristoffer,
I understand that each cluster generated by isONclust represents all reads that came from the same gene.
However, I was looking for a de novo tool/method that could determine wh…
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In attempt to incorporate external annotation, I ran gffcompare with one of the consensus output from CAT.
gffcompare warned that there was a number of redundant features. I pulled one of those ex…