User: tiago211287

gravatar for tiago211287
tiago21128710
Reputation:
10
Status:
New User
Location:
Brazil
Last seen:
2 months, 2 weeks ago
Joined:
3 years, 10 months ago
Email:
t**********@gmail.com

Posts by tiago211287

<prev • 10 results • page 1 of 1 • next >
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Comment: C: Installing lpsymphony on Mac OS X
... I face the exact same problem. Did you manage to fix it? ...
written 11 weeks ago by tiago21128710
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Comment: C: How to plot transcript biotype annotation into GVIZ?
... Thank you very much! ...
written 2.9 years ago by tiago21128710
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Comment: C: How to plot transcript biotype annotation into GVIZ?
... thank you florian! ...
written 2.9 years ago by tiago21128710
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Comment: C: How to plot transcript biotype annotation into GVIZ?
... More one thing, I want to plot only sections of a gene. I got this problem earlier with ensembl genes, when I also was trying to plot the names here but gviz only accept if the whole feature is showing up. Can this be done? ...
written 2.9 years ago by tiago21128710
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Comment: C: How to plot transcript biotype annotation into GVIZ?
... Thank you for helping me. Indeed, this method works. But can you explain to me why EnsDb.Mmusculus.v79 for the gene "Rabggtb", I only got 2 isoforms (protein coding). When actually, at the website ensembl there is more than 10 isoforms(non sense mediated decay) and others. It seems to me that EnsDb. ...
written 2.9 years ago by tiago21128710
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How to plot transcript biotype annotation into GVIZ?
... I've be trying to visualize my alignment data using gviz and could learn how to plot, using several tutorials around. However, I could not plot the transcript biotype instead (protein coding/non sense mediated decay/etc) of the name of the gene.  Is it even possible?   Thank you for any guidance ...
gviz written 2.9 years ago by tiago21128710
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Comment: C: DESeq2 PCA different from Prcomp PCA
... Thanks for the clarifications Michael. ...
written 3.3 years ago by tiago21128710
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Comment: C: DESeq2 PCA different from Prcomp PCA
... Indeed. This explain the difference. Why I would make the PCA for only 500 genes instead of all of them ? ...
written 3.3 years ago by tiago21128710
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DESeq2 PCA different from Prcomp PCA
... I made a PCA using the rlog matrix from DESEQ and got this plot where one of my sample groups did not group together.  plotPCA(rld, intgroup=c("condition")) http://s3.postimg.org/whlalmp6b/Rplot03.png Using the same matrix in Prcomp from r the samples get more clustered. cruzi.pca <- prcomp(r ...
deseq2 pca prcomp written 3.3 years ago by tiago21128710 • updated 3.3 years ago by Michael Love24k
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ggbio package only works with h19 genome
... Someone here knows how to use the bioconductor ggbio package for plotting ideograms? in the manual it says :  "Ideogram provides functionality to construct ideogram, check the manual for more flexible methods. We build genome hg19, hg18, mm10, mm9 inside, so you don’t have download it on the fly. ...
ggbio ggplot2 written 3.8 years ago by tiago21128710 • updated 3.8 years ago by James W. MacDonald50k

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Popular Question 2.5 years ago, created a question with more than 1,000 views. For DESeq2 PCA different from Prcomp PCA

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