Message-ID: <20120507150005.BWX83078@gimr.garvan.unsw.edu.au>
Date: 2012-05-07T05:00:05Z
From: Dario Strbenac
Subject: [Bioc-devel] GenomicFeatures FeatureDB EST Table Error
Hi,
It seems some data has been added to the EST data table in UCSC that GenomicFeatures cannot parse.
> ESTs <- makeFeatureDbFromUCSC(genome = "hg19", track = "est", tablename = "all_est")
Download the all_est table ... Error in scan(file, what, nmax, sep, dec, quote, skip, nlines, na.strings, :
line 4587019 did not have 22 elements
The relevant lines of the session information are :
R version 2.15.0 (2012-03-30)
Platform: x86_64-unknown-linux-gnu (64-bit)
other attached packages:
[1] GenomicFeatures_1.8.1
- Dario.