User: Mayte Suarez-Farinas

Reputation:
510
Status:
Trusted
Location:
United States
Last seen:
4 years ago
Joined:
12 years, 2 months ago
Email:
f******@mail.rockefeller.edu

Posts by Mayte Suarez-Farinas

<prev • 52 results • page 1 of 6 • next >
0
votes
4
answers
1.2k
views
4
answers
Answer: A: Reporting Tools error
...   Hi Laurent. I gave up on this for a while, but will try again. I got a new computer , all new installation from scratch and still I get an error when i try to publish a KEGG result.  keggParams<-new("KEGGHyperGParams", geneIds = DEGi_entrez, universeGeneIds=UnivEntrez,                       ...
written 4.1 years ago by Mayte Suarez-Farinas510
0
votes
0
answers
645
views
0
answers
KEGG pathway analysis with ReportingTools
... Dear All, I am successfully using the ReportingTools package to detect over- expressed categories using hypergeometric Test for Gene Ontologies and PFAM follwoing the package vignette. When I tried to do the same using KEGG pathways, the function publish does not work. I am surprise because class P ...
pathways go reportingtools written 5.1 years ago by Mayte Suarez-Farinas510
0
votes
2
answers
1.6k
views
2
answers
Comment: C: annotation of a probe in hgu133plus2
... Hi James Thanks for guiding me in the right direction. I am updating my pipeline to accommodate this. My only problem was the line publish(tab, htab, .modifyDF = list(entrezLinks, affyLinks)) gave me a msg error Error in .self$prepare(value, .toHTML = .toHTML, .toDF = .toDF, .modifyDF = .modifyDF, ...
written 5.4 years ago by Mayte Suarez-Farinas510
0
votes
2
answers
1.6k
views
2
answers
annotation of a probe in hgu133plus2
... Dear annotation builders I notice that one of my favorite genes DEFB4A is missing from the hgu133plus2.db the NetAffy database says that probeset 207356_at correspond to gene DEFB4A yet getSYMBOL('207356_at','hgu133plus2.db') returns NA. This happen in newer versions of this package, since it has b ...
annotation written 5.4 years ago by Mayte Suarez-Farinas510 • updated 5.4 years ago by James W. MacDonald50k
0
votes
2
answers
2.3k
views
2
answers
Comment: C: problem while loading affycoretools
... I tried all your advice: reinstall R, change mirror, still biocLite("affycoretools") does not install the package bit automatically and downloading the tgz from bit, the package bit does not compile Mayte Suarez-Farinas Research Assistant Professor Laboratory of Investigative Dermatology Biostatist ...
written 5.7 years ago by Mayte Suarez-Farinas510
0
votes
2
answers
2.3k
views
2
answers
Comment: C: problem while loading affycoretools
... Hi James and Dan I installed R from scratch and then run the following two lines: biocLite() (success) biocLite("affycoretools") which, after installing several packages gave me the "error: package ‘AnnotationDbi’ could not be loaded" (see ALL outputs below)' Dan, here is the output of biocin ...
written 5.7 years ago by Mayte Suarez-Farinas510
0
votes
2
answers
2.3k
views
2
answers
Comment: C: problem while loading affycoretools
... Dear James, Henrik and Steve I tried biocLite("ff") and got the msg: package ?ff? is not available (for R version 3.0.1) (see below). Then I went ahead and download the tar package form (http://cran.r-project.org/web/packages/ff/index.html) and used R CMD install to install it. However, while load ...
written 5.7 years ago by Mayte Suarez-Farinas510
0
votes
2
answers
2.3k
views
2
answers
problem while loading affycoretools
... I updated to the most recent R version. After this brand new installation, I get the following error while loading library affycoretools: library(affycoretools) Error in loadNamespace(j <- i[[1L]], c(lib.loc, .libPaths()), versionCheck = vI[[j]]) : there is no package called ‘ff’ Error: packag ...
go written 5.7 years ago by Mayte Suarez-Farinas510 • updated 5.7 years ago by James W. MacDonald50k
0
votes
1
answer
663
views
1
answer
error in easyRNASeq
... Dear All, I am trying to use the easyRNASeq package with 6 RNAseq samples from mouse. Single end, unstranded protocol, 50bp reads. I followed the vignettes and wrote this short code: library("easyRNASeq") library(Rsamtools) library(DESeq) library(edgeR) library(GenomicRanges) library(parallel) lib ...
rnaseq bsgenome easyrnaseq written 6.5 years ago by Mayte Suarez-Farinas510 • updated 6.5 years ago by delhomme@embl.de1.2k
0
votes
1
answer
569
views
1
answers
Comment: C: errors in FRMA
... >annotation(object) [1] "hgu133plus2" >new.object<-convertPlatform(object,'hgu133a') Loading required package: hgu133aprobe Loading required package: hgu133plus2probe Attaching package: ?hgu133plus2cdf? The following object(s) are masked from ?package:hgu133acdf?: i2xy, xy2i head ...
written 7.1 years ago by Mayte Suarez-Farinas510

Latest awards to Mayte Suarez-Farinas

Popular Question 4.1 years ago, created a question with more than 1,000 views. For problem while loading affycoretools
Popular Question 4.1 years ago, created a question with more than 1,000 views. For problem while loading affycoretools

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 16.09
Traffic: 139 users visited in the last hour