User: Asta Laiho

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Asta Laiho70
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70
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Last seen:
10 years, 3 months ago
Joined:
12 years, 3 months ago
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a*****@utu.fi

Posts by Asta Laiho

<prev • 7 results • page 1 of 1 • next >
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Comment: C: Problem using SQLForge for creating a custom annotation package
... Hi Marc, And thanks for helping me out. Since you told me you had no problem producing the annotation package with my IDs I also run the package with another computer and had no problem with that. When I compared the folder structures of the problematic package and the correct one I realized that t ...
written 10.3 years ago by Asta Laiho70
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Problem using SQLForge for creating a custom annotation package
... Dear all, I have been trying to use SQLForge package for creating a custom annotation package. No error messages can be seen when the package is created and I'm also able to install it without errors. But when I try to load the library it gives me the following errors: # library(testpackage.db) # ...
annotation go probe written 10.3 years ago by Asta Laiho70 • updated 10.3 years ago by Marc Carlson7.2k
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Illumina annotation packages
... To my knowledge, the current Illumina annotation packages are based on Illumina annotation's TargetID column which means they are created for the gene profile data. In gene profile data the possibly several different probe types for the same TargetID have been averaged. However, there are usually on ...
annotation probe written 11.6 years ago by Asta Laiho70 • updated 11.6 years ago by Lynn Amon280
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beadarray: combining several beadsummary data objects
... I am using beadarray to read in raw data from two Illumina mouse 6 bead chips. I am trying to read in 4 arrays (two arrays per sample) per chip. However, there is a problem I didn't manage to solve when I try to combine the data sets from two different chips. Combining the different data sets wor ...
biobase geneplotter affy affyio beadarray written 11.6 years ago by Asta Laiho70 • updated 11.6 years ago by Matt Ritchie460
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beadarray bead-level normalisation for single channel data
... I have been using beadarray v. 1.5.10 to analyse bead-level Illumina data. At the moment the package does not support bead-level normalisation for single channel data. As I would be very interested in getting data quantile-normalised at the bead-level, before summarising, I would like to know if th ...
beadarray written 11.7 years ago by Asta Laiho70 • updated 11.7 years ago by Oosting, J. PATH550
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Problems in AnnBuilder package function ABPkgBuilder
... I have been using AnnBuilder function ABPkgBuilder to create an annotation package for Affymetrix array rat2302. I compared the package that I created (23.3) to the rat2302 annotation package released on march 15th (Bioc 2.0) and I detected some differences between the packages. I was wondering wh ...
annotation go rat2302 probe biobase annotate annbuilder process written 12.1 years ago by Asta Laiho70 • updated 12.1 years ago by Nianhua Li870
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beadarray and BeadStudio v.2.3.41
... I have just received data from Illumina HumanRef-8_V2 Expression BeadChips. The scanner data was processed with the new BeadStudio v.2.3.41. First I tested analyzing the bead level data with beadarray. Reading only one .tif and .txt file at a time worked fine, but when there were more files, the f ...
biobase affy affyio beadarray written 12.3 years ago by Asta Laiho70 • updated 12.3 years ago by Mark Dunning320

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