User: Hamid Bolouri

gravatar for Hamid Bolouri
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Posts by Hamid Bolouri

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Job: Post-Doctoral Research Fellow - Patient Genomics Data Visualization
... A Postdoctoral Research Fellow position is available immediately to work on a collaborative project between the laboratory of Eric Holland and Hamid Bolouri in the Human Biology Division of the Fred Hutchinson Cancer Research Center (FHCRC), Seattle, WA. The postdoctoral fellow will join ongoing eff ...
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Comment: C: read gz compressed wig files?
... Thanks very much Michael. I'll use bigWig where it's available, and process wig-only datasets using wigLines on large-memory nodes. AOK. Thanks to everyone for all the help. Hamid On Fri, Apr 1, 2011 at 9:18 PM, Michael Lawrence wrote: > > > On Fri, Apr 1, 2011 at 5:43 PM, Hamid Bolouri ...
written 8.8 years ago by Hamid Bolouri50
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Comment: C: read gz compressed wig files?
... Thanks for the suggestion Michael. FYI: doing import(x, format = "wigLines") on a ~220MB (unzipped) ENCODE wig file, R crashed after about an hour with the minimalist Unix (Ubuntu) message: 'Killed'. I am guessing a memory limit issue (which is what I get trying the same command on a Windows ...
written 8.8 years ago by Hamid Bolouri50
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Comment: C: read gz compressed wig files?
... Martin, Steve; Thank you both much. Pretty amazing that hundreds of ENCODE data files mayt be 'non-standard'. Lesson learnt. Thanks again, Hamid On Fri, Apr 1, 2011 at 12:21 PM, Martin Morgan wrote: > On 04/01/2011 08:29 AM, Steve Lianoglou wrote: >> >> Hi, >> >> On T ...
written 8.8 years ago by Hamid Bolouri50
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read gz compressed wig files?
... Thanks Steve; > import.wig(gzopen('C:\\...pathto...\\wgEncodeBroadChipSeqSignalK562H 3k9me1.wig.gz')) Error in import.wig(gzopen("C:\\Users\\hbolouri\\Desktop\\ENCODE_data\ \wgEncodeBroadChipSeqSignalK562H3k9me1.wig.gz")) : error in evaluating the argument 'con' in selecting a method for funct ...
cancer rtracklayer written 8.8 years ago by Hamid Bolouri50 • updated 8.8 years ago by Steve Lianoglou12k
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read gz compressed wig files?
... hi; Is there a way to read gz compressed wiggle files (.wig.gz) without decompressing them first? I couldn't find anything online. Example files: http://hgdownload.cse.ucsc.edu/goldenPath/hg18/encodeDCC/wgEncodeRegMa rkEnhH3k27ac/ Thanks Hamid Bolouri -- http://labs.fhcrc.org/bolouri ...
written 8.8 years ago by Hamid Bolouri50 • updated 8.8 years ago by Steve Lianoglou12k

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