Admin: Marcel Ramos

gravatar for Marcel Ramos
Marcel Ramos ♦♦ 80
Reputation:
80
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Trusted
Location:
United States
Last seen:
1 day, 2 hours ago
Joined:
2 years, 9 months ago
Email:
m***********@roswellpark.org

Posts by Marcel Ramos

<prev • 22 results • page 2 of 3 • next >
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Answer: A: code format for Bioconductor submission
... Hi,  There are several ways you can check and format your code as suggested in BiocCheck. These include: goodpractice::gp (checker function - MangoTheCat/goodpractice github repository) lintr (checker package) formatR (text formatting package) RStudio settings (best used when writing)   You ...
written 12 months ago by Marcel Ramos ♦♦ 80
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Comment: C: Issue of clusterprofiler package
... Hi,  Generally, the maintainer is reponsive on GitHub. He should also respond here. You can create an issue at github.com/guangchuangyu/clusterprofiler/issues just to make sure he is aware.    Regards,  Marcel  ...
written 12 months ago by Marcel Ramos ♦♦ 80
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Answer: A: Issue of clusterprofiler package
... Hi,  Generally, the maintainer is reponsive on GitHub. He should also respond here. You can create an issue at github.com/guangchuangyu/clusterprofiler/issues just to make sure he is aware.    Regards,  Marcel  ...
written 12 months ago by Marcel Ramos ♦♦ 80
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Answer: A: "ALL" package under biocLite
... Hi Fakhrul,  Note: In the future please provide any error messages in English.  It seems to be an issue with the mapping of your network drive. The message says that UNC paths are not supported. Please map the network drive to something that is recognizable by R (i.e., "E:\path\to\folder\" ). You ...
written 12 months ago by Marcel Ramos ♦♦ 80
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Answer: A: PWM with columns that add up to 1
... Hi clausdkuhn,  Please see ?Biostrings::matchPWM for more details.    Regards, Marcel  ...
written 12 months ago by Marcel Ramos ♦♦ 80
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Answer: A: BiocCheck incorrectly reports I'm not registered on this site
... It looks like you're registered. This shouldn't be an error. Have you updated your BiocCheck?  https://support.bioconductor.org/api/email/david.a.quigley%40gmail.com/   ...
written 12 months ago by Marcel Ramos ♦♦ 80
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Answer: A: Classes and methods for working with segmented copy number data
... Hi Sean! We have the `MultiAssayExperiment::RangedRaggedAssay` class that can handle all of the above. It would require you to have a `GRangesList` object with a "score" metadata column denoting copy_number. The `GRangesList` can be created from a `DataFrame` using the `GenomicRanges::makeGRangesL ...
written 15 months ago by Marcel Ramos ♦♦ 80
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Comment: C: TCGAbiolinks 403 Forbidden Error
... Core team member Valerie pointed out that this error was missed because of numerous \dontrun flags that were used in the documentation. Particularly in the TCGAquery_maf.Rd file (pertinent to this issue, but there are more).  It is good to have tests so that when something goes wrong, it is easily ...
written 17 months ago by Marcel Ramos ♦♦ 80
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TCGAbiolinks 403 Forbidden Error
... Hello everyone,  I am posting this issue for the `TCGAbiolinks` package because I'm trying to download data but it seems like the link it uses is now broken.  https://tcga-data.nci.nih.gov/tcgafiles/ftp_auth/distro_ftpusers/anonymous/tumor/ The code that I ran encountering this '403 Forbidden Err ...
bug tcgabiolinks issue written 17 months ago by Marcel Ramos ♦♦ 80 • updated 16 months ago by tiagochst90
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Answer: A: Downloading bt.exon_quantification with TCGAbiolinks
... Hi Tiago,  Thank you for your prompt response. Yes, the directory was created. It seems like the issue has to do with tilde expansion.  Compare:  TCGAdownload(prad, "~/Documents/rawdata/", type = "bt.exon_quantification") TCGAdownload(prad, "/home/mr148/Documents/rawdata/", type = "bt.exon_qua ...
written 19 months ago by Marcel Ramos ♦♦ 80

Latest awards to Marcel Ramos

Scholar 7 months ago, created an answer that has been accepted. For A: Classes and methods for working with segmented copy number data
Scholar 7 months ago, created an answer that has been accepted. For A: Classes and methods for working with segmented copy number data

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