User: Thomas Carroll

gravatar for Thomas Carroll
Reputation:
400
Status:
Trusted
Location:
United States/New York/The Rockefeller University
Website:
https://rockefelleruni...
Scholar ID:
Google Scholar Page
Last seen:
5 months, 3 weeks ago
Joined:
4 years, 11 months ago
Email:
t************@gmail.com

Posts by Thomas Carroll

<prev • 100 results • page 1 of 10 • next >
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Comment: C: soGGi package: Error in .validate_names(rownames, ans_rownames, "assay rownames(
... hi Nicolas, Thank you for bug report (and adding a fix!) I will update this in release and development tomorrow. Thanks again, tom ...
written 6 months ago by Thomas Carroll400
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Comment: C: Problem with ChIPQC
... hi lionel, This is not an error but a warning and your ChIPQC object has been returned and printed to screen successfully. The warning is nothing to do with your data and something we will remove from future versions of ChIPQC. tom ...
written 7 months ago by Thomas Carroll400
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Comment: C: ChiPQC: 1Error in 1:(2 * readlength(object)) : NA/NaN argument
... hi, I have added some code to remove peaks close to chromosome edges (within distance of window defined in profileWin parameter) and report number removed. Hopefully this is the issue. This is in release ChIPQC version 1.18.2. thank you for report, tom ...
written 7 months ago by Thomas Carroll400
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Comment: C: ChiPQC: 1Error in 1:(2 * readlength(object)) : NA/NaN argument
... hi, I have added some code to remove peaks close to chromosome edges (within distance of window defined in profileWin parameter) and report number removed. Hopefully this is the issue. This is in release ChIPQC version 1.18.2. thank you for report, tom ...
written 7 months ago by Thomas Carroll400
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Comment: C: ChiPQC: 1Error in 1:(2 * readlength(object)) : NA/NaN argument
... hi, I suspect this may be caused by some peaks being very close to chromosome start or ends. I will put in a fix for this case tonight and that may solve this issue. Would you be able to share your bed files with me? If you can send a link to me at tcarroll(at)rockefeller.edu, then I could test tha ...
written 7 months ago by Thomas Carroll400
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Comment: C: ChiPQC: 1Error in 1:(2 * readlength(object)) : NA/NaN argument
... hi, I suspect this may be caused by some peaks being very close to chromosome start or ends. I will put in a fix for this case tonight and that may solve this issue. Would you be able to share your bed files with me? If you can send a link to me at tcarroll(at)rockefeller.edu, then I could test tha ...
written 7 months ago by Thomas Carroll400
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Comment: C: ChIPQC ERROR with "subscript out of bounds"
... hi, I am unable to see some portions of your post. Would it be possible to supply code and session information? best, tom ...
written 8 months ago by Thomas Carroll400
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Answer: A: ChIPQC error: NCList object is too deep
... hi Nik, Sorry, this was fixed in release and not in development branch. I have fixed in release and development last night and it should be available in release version 1.18.1 now. best, tom ...
written 8 months ago by Thomas Carroll400
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Answer: A: ChIPQC: error during annotation compilation
... hi, I have added the fix in development version ChIPQC 1.17.1 and to ChIPQC 1.16.1 now. Should be available from git repository and through biocLite tomorrow. very best, tom ...
written 13 months ago by Thomas Carroll400
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Comment: C: ChIPQC: error during annotation compilation
... hi Herve, Thank you for editing the error message.  tom   ...
written 13 months ago by Thomas Carroll400

Latest awards to Thomas Carroll

Supporter 12 months ago, voted at least 25 times.
Scholar 2.3 years ago, created an answer that has been accepted. For A: ChIPQC v1.4 fails uninformatively where version 1.2 works fine
Scholar 2.4 years ago, created an answer that has been accepted. For A: ChIPQC v1.4 fails uninformatively where version 1.2 works fine
Scholar 2.4 years ago, created an answer that has been accepted. For A: ChIPQC v1.4 fails uninformatively where version 1.2 works fine
Scholar 2.5 years ago, created an answer that has been accepted. For A: ChIPQC v1.4 fails uninformatively where version 1.2 works fine
Scholar 3.7 years ago, created an answer that has been accepted. For A: ChIPQC v1.4 fails uninformatively where version 1.2 works fine
Scholar 3.7 years ago, created an answer that has been accepted. For A: shiftApply verbosity (in ChIPQC)
Scholar 3.7 years ago, created an answer that has been accepted. For A: ChIPQC and/or Diffbind - retrieving normalized read counts for peaks from single
Scholar 3.7 years ago, created an answer that has been accepted. For A: ChIPQC and broadPeak input
Scholar 3.7 years ago, created an answer that has been accepted. For A: ChIPQC v1.4 fails uninformatively where version 1.2 works fine
Scholar 4.0 years ago, created an answer that has been accepted. For A: ChIPQC v1.4 fails uninformatively where version 1.2 works fine
Scholar 4.5 years ago, created an answer that has been accepted. For A: ChIPQC v1.4 fails uninformatively where version 1.2 works fine

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