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I'm just wondering, what is the Orthogroup column in `N*.tsv` mean? I think the distinct orthogroups should be the HOGs, but sometimes I see that different rows will have the same Orthogroup ID, and I…
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Next step, I think, is to try to annotate the orthogroups from the Phaeo transcriptome/genomes ...
_Originally posted by @maggimars in https://github.com/maggimars/Tara-Phaeo/issues/4#issuecomment-…
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In many of my Orthogroup sequence files, within the same orthogroup I am getting duplicate copies of the same exact gene, with identical identifiers and amino acid sequences. My original fasta files t…
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Bonjour,
J'ai un problème à l'étape Orthogroup tool et je ne comprend pas le message d'erreur.
```
Traceback (most recent call last):
File "/w/galaxy/galaxy3/shed_tools/toolshed.g2.bx.psu.e…
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I looked into this issue raised by @janfassler. My analysis and discussion can be read [here](https://htmlpreview.github.io/?https://github.com/binhe-lab/C037-Cand-auris-adhesin/blob/master/01-global-…
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Hello,
I'm having the following error when running genespace:
> out 8 unique places
...Carve_hap2: 2407 genes in 105 OGs hit > 8 unique places ***
NOTE! Genomes flagged *** have > 5% …
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Hello jtlovell,
Thanks for all your work on this package!
I'm using GENESPACE v1.3.1 in a conda environment with R 4.1.2 and have it successfully for your test dataset so it should all be worki…
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See `/vortexfs1/omics/alexander/share/formaggi` for the genomic contigs, predicted coding sequences, and amino acid sequences :)
_Originally posted by @halexand in https://github.com/maggimars/Tar…
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Hello,
I am running Orthofinder on 276 species of insects with the default settings (orthofinder.py -f /directory). This is the message I got after writing orthogroups to file: ```
2023-01-31 …
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老师好,感谢您分享的脚本,我很幸运在做比较基因组时遇见了您的教程,这给我了很大的帮助。
我在运行[gene_family_summary.R]https://github.com/xieyichun50/coral_genome_Catalaphyllia_jardinei/blob/main/scripts/gene_family_summary.R
我没找到Orthogroup.sta…