User: Pengcheng Yang

Reputation:
50
Status:
Trusted
Location:
China
Website:
https://scholar.google...
Scholar ID:
Google Scholar Page
Last seen:
1 month, 3 weeks ago
Joined:
5 years, 9 months ago
Email:
p******@gmail.com

Posts by Pengcheng Yang

<prev • 33 results • page 2 of 4 • next >
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Comment: C: bam2CTSS function error from CAGEr package
... Hi Charless Plessy, I have updated all the packages (after I have update the R version from 4.3 to 5.0), but the error remained the same. ...
written 6 months ago by Pengcheng Yang50
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Comment: C: converting a fasta file to .2bit format
... You can also have a try faToTwoBit command lilne program ...
written 6 months ago by Pengcheng Yang50
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edgeR compilation error: with g++ 4.9.2 and R-5.0 on linux platform
... I have searched this forum, and found some threads (https://support.bioconductor.org/p/83811/, https://support.bioconductor.org/p/103623/ ) on this topic but don't resolved my problem. According to the discussion, this problem is caused by the old version of g++ library. However, in my case, the err ...
edger compilation error written 6 months ago by Pengcheng Yang50 • updated 6 months ago by Gordon Smyth37k
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Comment: C: bam2CTSS function error from CAGEr package
... Hi Charless Plessy, I have updated MultiAssayExperiment from 1.0.1 to 1.6.0,  and SummarizedExperiment has already in the latest version 1.10.1. But the error remain. > library("BSgenome.Drerio.UCSC.danRer7") > library("MultiAssayExperiment") > library("SummarizedExperiment") > library ...
written 6 months ago by Pengcheng Yang50
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Comment: C: bam2CTSS function error from CAGEr package
... Hi Charles Plessy, the error remain after I loaded the two packages. > search() [1] ".GlobalEnv" [2] "package:SummarizedExperiment" [3] "package:DelayedArray" [4] "package:BiocParallel" [5] "package:matrixStats" ...
written 6 months ago by Pengcheng Yang50
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Comment: C: no import.bam function in CAGEr version 1.22.3
... OK! To mark the answered question. I have added the answer and marked it. Thank you! ...
written 6 months ago by Pengcheng Yang50
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Answer: A: no import.bam function in CAGEr version 1.22.3
... This problem has been solved by Charles Plessy in the comment, and detailed below: The import.bam function can be accessed by: CAGEr:::import.bam.  ...
written 6 months ago by Pengcheng Yang50
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Comment: C: bam2CTSS function error from CAGEr package
... Hi Charles Plessy, I have tested the example code for create CAGEexp, but failed with the following error message: invalid name for slot of class "CAGEexp": colData Thank you!   > library("BSgenome.Drerio.UCSC.danRer7") > library(CAGEr) > inputFiles = list.files( system.file("extdata", p ...
written 6 months ago by Pengcheng Yang50
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Comment: C: no import.bam function in CAGEr version 1.22.3
... Hi, Charles Plessy, thank you for your reply. I have successfully run the function through CAGEr:::import.bam. However, another problem about `bam2CTSS` has been encountered. Please help me. I have posted the problem in a new thread (https://support.bioconductor.org/p/113813/).    ...
written 6 months ago by Pengcheng Yang50
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bam2CTSS function error from CAGEr package
... During testing CAGEr package, following is the error message from `bam2CTSS` function. > i.bam <- CAGEr:::import.bam("/path/to/file.bam",filetype="bam") -> Filtering out low quality reads... > > i.ctss <- CAGEr:::bam2CTSS(i.bam,removeFirstG=TRUE,correctSystematicG=FALS ...
cager written 6 months ago by Pengcheng Yang50

Latest awards to Pengcheng Yang

Scholar 10 months ago, created an answer that has been accepted. For A: no import.bam function in CAGEr version 1.22.3
Scholar 10 months ago, created an answer that has been accepted. For A: bam2CTSS function error from CAGEr package
Supporter 2.1 years ago, voted at least 25 times.
Popular Question 4.9 years ago, created a question with more than 1,000 views. For ERROR: compilation failed for package XVector

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