User: Tiphaine Martin

Reputation:
30
Status:
New User
Location:
France
Last seen:
3 weeks, 2 days ago
Joined:
3 years, 11 months ago
Email:
t**************@kcl.ac.uk

Posts by Tiphaine Martin

<prev • 29 results • page 1 of 3 • next >
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Comment: C: getBM in loop
... I made the request of more than 20,000 genes per tissue and run this request for several tissues. sorry this remark was not very clear. I don't make a loop for each genes but by tissue. Some of these request fail. I asked to rerun and for the tissue failling and for the following tissues, manually, ...
written 23 days ago by Tiphaine Martin30
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getBM in loop
... Hi, Could you advise me how to run "getBM" in a loop when the connection is too long and ask to rerun until I have a results ? I see that there is a option called curl, but I never used. So I don't know how to use it.   library(biomaRt) #connexion to ENSEMBL mart <- useMart(biomart = "ENSE ...
biomart ensembl curl written 24 days ago by Tiphaine Martin30 • updated 18 days ago by Mike Smith2.2k
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Answer: A: Gviz ChromHMM colouring for AnnotationTracks
... Hi, In my r package coMET, I allow user to visualise chrommHMM using Roadmap color or our color https://bioconductor.org/packages/release/bioc/html/coMET.html, you have different color sets described in the vignette.  This was implemented in the function "chromHMM_RoadMap". Feel free to use it and ...
written 6 weeks ago by Tiphaine Martin30
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Answer: A: Gviz - UcscTrack
... Hi, This error and related to the link between Gviz and UCSC When I apply with this general features (it better that you give us your area that you want to visualize) gen <- "hg19"  chr <- "chr2"  start <- 38290160 end <- 38303219 I have another error message : Error in UcscTrack(ge ...
written 7 weeks ago by Tiphaine Martin30
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Answer: A: ENCODE examples from vignette do not work (missing data?)
... Hi, Sorry for the delay to answer. The new version of coMET have the file ENCODE data directory. Regards, tiphaine ...
written 7 weeks ago by Tiphaine Martin30
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Comment: C: ENCODE examples from vignette do not work (missing data?)
... Hi,   Sorry for the delay to answer. The new version of coMET have the file ENCODE data directory. Regards, tiphaine ...
written 7 weeks ago by Tiphaine Martin30
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Comment: C: install new package from bioconductor
... http work, but not https for me. Thank you. ...
written 2.2 years ago by Tiphaine Martin30
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Answer: A: install new package from bioconductor
... Hi Julie,   It works, but why is  in the page of S4Vector, the instruction to install this page ? source("https://bioconductor.org/biocLite.R") biocLite("S4Vectors") I checked for my package and I have what you propose. any way, it works. So I can carry on :) Thanks, Tiphaine ...
written 2.2 years ago by Tiphaine Martin30
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install new package from bioconductor
... Hi, I tried to install new packages and I have this error message source("https://bioconductor.org/biocLite.R") Error in file(filename, "r", encoding = encoding) : https:// URLs are not supported I did some update of package on my version of ubuntu. I didn't think that one of them can influenc ...
software error bioconductor written 2.2 years ago by Tiphaine Martin30 • updated 2.2 years ago by Julie Zhu3.8k
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Answer: A: Question: Change the color of the link between 2 features belonging to the same
... Hi Florian, I can understand it can be tricky to have simple solution to expose that level of granularity in the UI. Consequently, I can bypass the group level in considering that the link between 2 objets is a new object with different type. In this case, I can put the color that I would like but ...
written 2.4 years ago by Tiphaine Martin30

Latest awards to Tiphaine Martin

Popular Question 21 months ago, created a question with more than 1,000 views. For install new package from bioconductor
Scholar 2.2 years ago, created an answer that has been accepted. For A: install new package from bioconductor
Popular Question 2.4 years ago, created a question with more than 1,000 views. For Issue to install biomaRt, Gviz, rtracklayer, and S4Vectors under BioC 3.0

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