Comments (5)
And this is what it's on my "VennDiagram.2024-04-06_07-18-31.log"
INFO [2024-04-06 07:18:32] [[1]]
INFO [2024-04-06 07:18:32] Y[idx]
INFO [2024-04-06 07:18:32]
INFO [2024-04-06 07:18:32] $col
INFO [2024-04-06 07:18:32] colours[idx]
INFO [2024-04-06 07:18:32]
INFO [2024-04-06 07:18:32] $fill
INFO [2024-04-06 07:18:32] colours[idx]
INFO [2024-04-06 07:18:32]
INFO [2024-04-06 07:18:32] $alpha
INFO [2024-04-06 07:18:32] [1] 0.3
INFO [2024-04-06 07:18:32]
INFO [2024-04-06 07:18:32] $filename
INFO [2024-04-06 07:18:32] NULL
INFO [2024-04-06 07:18:32]
from compare_genomes.
How many species do you have on your: config/venn_species_max_5.txt
?
from compare_genomes.
Just four species
from compare_genomes.
I'm assuming you have unique species, if that's the case then you may have the same set of genes in both species. I'll try to accommodate for that in the next update.
- To validate this hunch, can you remove one of the species you think is most likely very closely related to another species in your list?
from compare_genomes.
For sure, I'll try removing one of them in my next run. Although I think that my four species are not very closely related among each other. Even the two that would be the most, are not too much. But of course, I'll give this a try, and let you know how it went. Thanks so much!
from compare_genomes.
Related Issues (17)
- Error executing process > 'PLOT' HOT 32
- Error on test dataset HOT 4
- Diagnosing pipeline failure HOT 11
- Suitable for no model organisms? HOT 3
- cannot open file 'ORTHOGROUPS_SINGLE_GENE.NT.timetree.nex': No such file or directory HOT 17
- assess_specific_genes is taking days HOT 6
- RE: 4DTv and WGD HOT 5
- cannot open file 'CAFE_results/Gamma_clade_results.txt': No such file or directory HOT 2
- assess_specific_genes.nf fails to open ORTHOGROUPS_SINGLE_GENE.NT.treefile HOT 2
- Make use of Nextflow's IO more effectively
- Improve documentation and debug Venn diagram plotting HOT 3
- Rerunning from orthogroups appends species names to protein sequence names which conflicts with downstream module expectations of HOT 1
- Process `PLOT` terminated with an error exit status (1) HOT 39
- Allow for PANTHER databases to be linked instead of downloaded
- HyPhy integration for more efficient detection of signatures of selection on gene sequences
- Performance assessment on polyploid genomes
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from compare_genomes.