User: Jack

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Jack30
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Posts by Jack

<prev • 18 results • page 1 of 2 • next >
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Plot SNPs on GViz
... I have a list of snps in .txt format. only 10 snps to be exact, that appear on a certain region on chromosome 7. In my text file, I have the position of the SNP and the values I need, I just have to create the `zoomed-in` effect like in the picture below. I 'm using GViz, to plot the Ideogram of th ...
R snps gviz written 7 days ago by Jack30
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Comment: C: Remove text labels of variables on diagonal corrplot
... @ddiez I've updated the question. check it again. ...
written 7 days ago by Jack30
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Remove text labels of variables on diagonal corrplot
... How can I remove text labels from diagonal only on corrplot? my_correlation_matrix1 <- read.table("path/to/matrix", header = T) my_correlation_matrix2 <- read.table("path/to/matrix", header = T) corrplot(my_correlation_matrix1, method = "color", ...
R corrplot written 7 days ago by Jack30 • updated 6 days ago by ddiez1.0k
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Answer: A: Get hg19 coordinates of SNPs from gwas catalog
... have a look at [this][1] . at least for my project, I found what I needed. [1]: http://www.nature.com/ncomms/2015/150122/ncomms6966/extref/ncomms6966-s3.xlsx ...
written 8 days ago by Jack30
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Answer: A: Plot a DNA chain in R
... The answer is Gviz library and Ideogram ...
written 9 days ago by Jack30
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Comment: C: Plot a DNA chain in R
... @Im687 wow! Thank you! this just might be it! ...
written 9 days ago by Jack30
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Plot a DNA chain in R
... Hello, I'm kinda new to this, what I would like to do is plot a DNA chain in R. Namely: A thick `vertical line` that will represent one DNA chain, and next to it I want to put some `zoom-in` windows that will highlight specific positions on it. Can I do this in R? Or do I need another software? ...
R dna plot written 9 days ago by Jack30
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Get CMap data
... Is there an R package that would take Broad Institutes CMap data and organize them in pathways? My colleagues are confident that there is one but they dont remember the name. ...
institute cmap broad written 24 days ago by Jack30 • updated 24 days ago by Zhilong Jia1.0k
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What libraries to use for Broads Cmap?
... I would like to start using CMap from Broad, but I don't know how to use it. Are there any specific tutorials that I should watch? or specific R (or Python) packages to download? More specifically, I would like to try to identify compounds in CMap that are either up- or down-regulated. ...
up-regulated cmap broad down-regulated written 5 weeks ago by Jack30 • updated 5 weeks ago by igor3.1k
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Comment: C: Colapse column values to multiple rows for further analysis.
... Okay, the data I copied-pasted are wrong. I can't copy-paste 41000+ genes and their synonyms in this thread for obvious reasons. I just took random genes and random synonyms, to present an example. The file is generated through a Python script, so I can't post the code for that, because what it ...
written 3 months ago by Jack30

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