User: niutster

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niutster0
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Posts by niutster

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Finding DOSE package for R3.3.3
... Hi, I searched for a version of DOSE >= 2.11.12 in windows that is compatible to R3.3.3 but in bioconductor (https://bioconductor.org/packages/release/bioc/html/DOSE.html) there was not any DOSE updated version for windows.     ...
R package installation written 9 days ago by niutster0 • updated 8 days ago by Hervé Pagès ♦♦ 12k
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Error in installing ReactomePA
... Hi, I want to do pathway analysis with "ReactomePA" in R, I installed all dependencies but I get this error: Error : Functions found when exporting methods from the namespace ‘S4Vectors’ which are not S4 generic: ‘grep’, ‘grepl’ Error: package or namespace load failed for ‘DOSE’   ...
R package written 9 days ago by niutster0 • updated 9 days ago by Martin Morgan ♦♦ 19k
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seqlm installation error
... Hi, I faced an error while installing "seqlm" package in R 3.2.1 in windows OS, by these commands: library(devtools) install_github("raivokolde/seqlm") , error: Error in curl::curl_fetch_disk(url, x$path, handle = handle) : SSL peer certificate or SSH remote key was not OK How can i fix it? Thank ...
software error R installation written 11 weeks ago by niutster0 • updated 11 weeks ago by Marcel Ramos ♦♦ 50
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removing probes representing in a certain beads
... Hi, I want to remove probes not representing by a certain numbers of beads on array in minfi tool, anybody know how can do it? Thanks ...
preprocessing probe minfi written 12 weeks ago by niutster0
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effective tools, methylation data
... Hi, I want to analysis methylation data, but i dont  know which tools is better, for example : minfi, CHAMP, seqlm,... Thanks ...
bioconductor illimina 450k methylation written 12 weeks ago by niutster0 • updated 12 weeks ago by James W. MacDonald43k
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Comment: C: minfi probe removal
... Thanks for your answer. ...
written 12 weeks ago by niutster0
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Comment: C: minfi probe removal
... Thanks, but minfi's objects are RGset or Methylset. There are not any eset. ...
written 12 weeks ago by niutster0
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minfi probe removal
... Hi, I am using minfi to pre-processes methylation files but i don't know how can I remove probes with a certain p-value, there is not any command in tutorial to tell me about it. Thanks   ...
probe minfi written 12 weeks ago by niutster0 • updated 12 weeks ago by James W. MacDonald43k
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Comment: C: Combining .idat and GEO data sets in minfi
... Hi, Do you have any idea about "TableControl data GSnormalisation HM450" and "TableControl annotations HM450" in illumina HM 450 k data? ...
written 12 months ago by niutster0
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illumina HM 450 data
... Hi,   I have some IDAT files from illumina  HM 450k  and i want to analysis these data but there is some additional data such as "TableControl annotations HM450" and "TableControl data GSnormalisation HM450" files. does anybody know these files and their information?    Thanks ...
methylation illumina450k written 12 months ago by niutster0

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