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Hi, I am trying to identify the syntenic pattern. I have three genomes to compare one is diploid A (2x), B- hexaploid(6x) and C- allododecaploid (12x). The results I am getting A-B (1:4) instead of 1…
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This will be similar to macro-synteny-blocks, but return a PAF file (format defined [here](https://github.com/lh3/miniasm/blob/master/PAF.md)) to applications such as JBrowse.
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Hi, I've been trying findZX with several species, with the first one it worked great, it's really wonderful the pipeline, but the next species are giving me errors plotting the number 4s.
The errors …
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I am running GENESPACE and keep running into this error and I can't seem to pin down what is causing the error.
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4. Flagging synteny for each pair of genomes ...
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Greetings I'm running a syteny analysis on multiple genomes.
#Context: I'm studying the overall synteny among multiple assemblies of a eukaryotic organism, First I took 1 assembly of each species an…
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hello, rengang! This is an excellent tool that provides a very convenient command line to implement what used to be such a complex process.
However, during my use, I found that the functionality it p…
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I am new to wfmash (but of course have plenty of alignment experience).
I tried an experiment in which I generated a random genome and a second with rearrangements (including random reversals) of i…
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Hi:
I ran the test_odp_basic, and I got an error in job 16 (unfortunately I didn't save it). I tried to run it again but I get the following error immediately, even after erasing the folders and file…
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Hiya!
I've been trying to run ODP, and am successfully generating the ALG plots, however whenever I try to run the #plot_sp_sp: True to generate synteny plots, I get this error:
MissingInputExcept…
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e.g.
python -m jcvi.compara.synteny screen **--minspan=30**
Add this option and all other onto the pipeline