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Problems in mmgenome2 with own dataset #11
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Hi! Sorry I haven't seen your post until now. You must ensure you have no duplicate scaffold names in the assembly. They must be unique. |
Sorry that was my mistake, I rectified it now.
But the only thing I am again struggling with is mmplot, it says loading
required package: shiny, for long it shows this command.
Also, where do we get these values from 7.2, 16.2, 25.2 etc?
selection <- data.frame(cov_C13.11.25 = c(7.2, 16.2, 25.2, 23.3, 10.1),
cov_C14.01.09 = c(47, 77, 52.8, 29.5, 22.1))
Please help at the earliest
…On Fri, Aug 24, 2018 at 5:54 PM Kasper Skytte Andersen < ***@***.***> wrote:
Hi!
Sorry I haven't seen your post until now. You must ensure you have no
duplicate scaffold names in the assembly. They must be unique.
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Yes sir, I understood that but how for these specific values, sorry for
multiple posts.
…On Fri, Aug 24, 2018 at 6:48 PM Kasper Skytte Andersen < ***@***.***> wrote:
shiny is required, so it loads it. Have a look at the get started guide
here <https://kasperskytte.github.io/mmgenome2/articles/mmgenome2.html>.
It's coverage values
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You get the coordinates by using the locator feature to extract scaffolds of interest. I assume you got those values from the examples, so it's just that, example points. |
Thank you very much for the help.
Thank you very much once again.
Please be there to always help us.
Much regards and wishes
…On Fri, Aug 24, 2018 at 7:10 PM Kasper Skytte Andersen < ***@***.***> wrote:
You get the coordinates by using the locator feature to extract scaffolds
of interest. I assume you got those values from the examples, so it's just
that, example points.
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<#11 (comment)>,
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You're welcome |
Initially, the error was "Error in .Call2("new_input_filexp", filepath, PACKAGE = "XVector") :
cannot open file 'data/assembly.fa", then when the path was provided it gave the following error:
"Error: The assembly contains duplicate sequence names"
Please help at the earliest.
Regards
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