User: guliasitu40
guliasitu40 • 80
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Posts by guliasitu40
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C: Module trait association in wgcna
... Lot of thanks Kevin, it worked perfectly fine.
Sorry to bother you again, but I am getting negative scale independence (y-axis). I have also removed genes which were not suitable for the anlaysis. Does the negative scale dependence showing that my data don't follow the scale free topology or does it ...
written 4 weeks ago by
guliasitu40 • 80
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C: Module trait association in wgcna
... Thanks for the reply Kevin!
Is the pink_module in your command contain only the genes names or expression values of the genes? and does mydata corresponds to traitdata that I have shown the the table? ...
written 4 weeks ago by
guliasitu40 • 80
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... Hi all,
I am using wgcna for coexpression analysis of time series data. I have 48 samples in total (16 time points with 3 replicates). I have identified different modules based on gene correlation across all samples. After this I want to associate these modules to trait of interest.
I have categor ...
written 5 weeks ago by
guliasitu40 • 80
• updated
4 weeks ago by
Kevin Blighe ♦ 70k
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... Dear all,
I have Illumina fastq reads of small eukaryotic genome (Chlamydomonas sp.). I am doing its genome assembly using Spades (de novo assembler) and after this I want to structurally and functionally annotate the genome. Before moving to annotation part, I should know the quality of the assembl ...
written 4 months ago by
guliasitu40 • 80
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C: KEGG ID conversion to pathways
... Thanks, I will try this.
Regards ...
written 4 months ago by
guliasitu40 • 80
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... Dear all,
I have C. reinhardtii protein sequences and I have submitted these sequences into KAAS to get the KEGG ID to the corresponding protein sequence and got:
Cre1 K07870
Cre2 K01952
Cre3 K20989
Cre4 K12667
Now, i want to convert these KEGG ids ...
written 4 months ago by
guliasitu40 • 80
• updated
4 months ago by
shelkmike • 370
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... Great! Thanks.
It now works perfectly.
Sorry to disturb you so much.
Thanks again ...
written 4 months ago by
guliasitu40 • 80
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... Thanks for your response.
I am using the same code that you have mentioned:
ggplot(mydat, aes(y = reorder(GO_term, as.numeric(Type)), x = Number, size = Number)) + geom_point(aes(color = Class), alpha = 3.0) + geom_tile(aes(width = Inf, fill = Type), alpha = 0.2) + scale_fill_manual(values = ...
written 4 months ago by
guliasitu40 • 80
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... Hi, Sorry to disturb you again. I am getting the desired result with your code but getting some strips darker than others. Is there any way to keep it uniform?
I am getting something:
...
written 4 months ago by
guliasitu40 • 80
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... Awesome! It worked perfectly.
Thanks for your help.
Cheers
...
written 5 months ago by
guliasitu40 • 80
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