User: peter robinson

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Posts by peter robinson

<prev • 30 results • page 1 of 3 • next >
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Mapping Agilent Probes
... Dear 'conductors, I am trying to get a mapping from Agilent mouse microarray probes to ENSEMBL gene ids for further analysis. >library("mgug4122a.db") >data = "path to data" ## This is data produced from an initial analysis of an Agilent hybridization >dat <-read.table(data,sep="," ...
microarray probe written 10.0 years ago by peter robinson300 • updated 10.0 years ago by MartenJäger40
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How to go from affymetrix to Ensembl transcript IDs
... Hi all, sorry if this is a dumb question, but rtfm has not helped so far. I would like to get the Ensembl transcript IDs that correspond to affymetrix probeset ids using biomaRt. As a test case, I am using the ALL data set from bioconductor. My code: library("biomaRt") library("ALL") data("ALL") ...
hgu95av2 affy biomart written 10.3 years ago by peter robinson300 • updated 10.3 years ago by Steve Lianoglou12k
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Cannot find MoGene-1.0
... Hi all, I am trying to use the affy package to analyze GeneChip? Mouse Gene 1.0 ST Array data. What do I need to do to get the CDF information for this chip? I am loading the mogene10st.db package, but that doesnt seem to be correct. Thanks a lot, Peter > library(affy) Lade n?tiges Paket: Bi ...
cdf affy written 10.4 years ago by peter robinson300 • updated 10.4 years ago by Manhong Dai200
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roc50
... Hi all, I know that Bioconductor has a roc package, but I am looking for a good implementation of roc50 (or rocn) in Bioconductor, R, or some other language, and would greatly appreciate any tips or hints. Thanks, -Peter ...
roc written 10.5 years ago by peter robinson300 • updated 10.5 years ago by Richard Pearson160
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Affymetrix probeset ids to gene symbols
... Dear all, I have a list of affymetrix probeset ids from another program and would like to use annaffy to extract the corresponding gene names. I am still something of a novice at R and am probably doing something silly, but found no answer in the package vignette. My script: library(annaffy) dat ...
annaffy written 11.0 years ago by peter robinson300 • updated 11.0 years ago by MARIA STALTERI160
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Comment: C: Cannot load preprocessCore.so
... (...) > > Probably there were error messages with biocLite that generated the > warnings, probably when the library preprocessCore was being > installed. Try > > >> biocLite('preprocessCore') >> > > by itself. > > Thanks, that helped! I had thought that bio ...
written 11.0 years ago by peter robinson300
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Cannot load preprocessCore.so
... Hi conductors, I am trying to install Bioconductor on a new computer (debian linux) and just went through source("http://bioconductor.org/biocLite.R") biocLite() However, six packages had a nonzero exit status, and if I then enter "library(affy)", the system complains it cannot find preprocessCor ...
preprocesscore written 11.0 years ago by peter robinson300 • updated 11.0 years ago by Martin Morgan ♦♦ 23k
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Where are the broadsets for GSEA?
... Hi all, I would like to try the tutorial on gene set enrichment analysis as given here: http://www.biostat.harvard.edu/%7Ecarey/bos08bct/pathcase.pdf however, if (!exists("broadsets")) load("broadsets.rda") fails > if (!exists("broadsets")) load("broadsets.rda") Fehler in readChar(con, ...
written 11.2 years ago by peter robinson300 • updated 11.2 years ago by Martin Morgan ♦♦ 23k
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Using current GO data with Bioconductor
... Dear Bioconductors, we are in the process of testing new routines for GO analysis and would like to use the same version of the gene_ontology.obo file for the Bioconductor routines as well as other software. Is there any way of importing a current version of this data into Bioconductor so it can be ...
go process written 12.0 years ago by peter robinson300 • updated 12.0 years ago by Marc Carlson7.2k
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Differential expression in time series
... Hi, I was wondering if anyone could give me pointers for the following situation. Given a time course data series with 3-4 repeats for individual time points, what is the best way of determining a list of differentially expressed genes for each time point (possibly compared to the zero time point)? ...
written 12.2 years ago by peter robinson300 • updated 12.2 years ago by James W. MacDonald50k

Latest awards to peter robinson

Popular Question 10.0 years ago, created a question with more than 1,000 views. For Filtering by fold change
Popular Question 10.0 years ago, created a question with more than 1,000 views. For Cannot load preprocessCore.so
Popular Question 10.0 years ago, created a question with more than 1,000 views. For Affymetrix probeset ids to gene symbols
Popular Question 10.0 years ago, created a question with more than 1,000 views. For How to go from affymetrix to Ensembl transcript IDs
Popular Question 10.0 years ago, created a question with more than 1,000 views. For Differential expression in time series
Popular Question 10.0 years ago, created a question with more than 1,000 views. For Mapping Agilent Probes

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