-
Hi,
Quick query on how Roary assigns names to each cluster. I notice that in my analysis (default settings), I get a number of clusters named as the same gene in slight variations - e.g. 'mecA', 'm…
-
Hello Jefferson,
My analysis includes my species of interest plus six other species. In my "comparisons_4DTv.txt", I listed single species as well as pairs of species, as follows:
``
mySpecies
…
-
**Authors:** Fiona C. Wood, Yonas I. Tekle
**Abstract:** The advent of molecular phylogenetics has led to numerous cases where species determination differs based on molecular or morphological data. …
-
We have found an edge case that causes a lot of trouble for Diamond. We are aligning many complete protein sets from different organisms in all-vs-all Diamond jobs. We need to find both orthologs acro…
-
High I am running, when I run in my data I got the error "Could not split CESAR jobs".
I run the following line:
./toga.py make_lastz_chains/make_lastz_chains/chicken_turkey/target.query.final.cha…
-
In GitLab by @pmoret on Apr 12, 2016, 15:12
```sql
-- Homologous genes have a same omaGroupId. They can be retrieved at a given taxon.
CREATE TABLE
OMAHierarchicalGroupToGeneAndTaxon (
omaGroup…
-
Hi,
I'm looking at the and product of CAT, run only using TransMap and excluding the indel classification `r.extend(find_indels(tx, psl, aln_mode))`.
I'm now trying to build a table of orthologs…
-
Is there any outfiles that would be handy to choose one orthologous sequences per species per orthogroup ?
It is to make phylogenies with them.
I could choose the longest but I fear that the longest…
-
Hello,
is there a way to import a dataset that is saved in .h5ad or in .loom format into metacell?
Thanks!
Alessandra
-
Hello
Could you please help me to run your pipeline? I only have one gene that I would like to find its orthologs in 136 sequenced plant genomes.
Do I need to download the sequenced genomes (in …