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Search: Posts Made By: Lesley
Forum: Bioinformatics 02-22-2010, 02:47 PM
Replies: 47
Views: 25,645
Posted By Lesley
Thanks for the info on the reference gtf. I...

Thanks for the info on the reference gtf. I downloaded both fasta and gtf from ensembl and ran into the chr problem. However, now when I run the cuffcompare on the reference genome I get tss_ids but...
Forum: Bioinformatics 09-02-2009, 04:54 PM
Replies: 1
Views: 1,991
Posted By Lesley
Post Maq multiple hits file

Hi,
I have been using MAQ for a while and like how it fits into MapView for mapping areas of low coverage (i.e no consensus possible).:)

I have no problems in converting maq map files to txt...
Forum: Service Providers 09-02-2009, 04:46 PM
Replies: 162
Views: 133,082
Posted By Lesley
Allan Wilson Centre Genome Service at Massey...

Allan Wilson Centre Genome Service at Massey University in New Zealand (definitely not Australia)
http://www.allanwilsoncentre.ac.nz/AWCGSintro.htm
Offers a service with Solexa sequencing (Illumina...
Forum: Bioinformatics 06-18-2009, 03:31 PM
Replies: 65
Views: 31,030
Posted By Lesley
Thanks again Roald, We are going to try this...

Thanks again Roald,
We are going to try this workflow for our sequences and see how it goes.
The reason we are not using the pipeline for separation is that we had issues with version 1.3 and we...
Forum: Bioinformatics 06-18-2009, 03:24 PM
Replies: 78
Views: 41,360
Posted By Lesley
Thanks for the quick reply. We still get errors...

Thanks for the quick reply. We still get errors as below:

gap5-1.2.1-linux-x86_64/linux-x86_64-bin/gap5 GiardiaV

load libitcl3.3.so =>
load libitk3.3.so =>
load libiwidgets.so => couldn't...
Forum: Bioinformatics 06-16-2009, 02:35 PM
Replies: 78
Views: 41,360
Posted By Lesley
Brilliant, we have been awaiting Gap5 since it...

Brilliant, we have been awaiting Gap5 since it was marketed so heavily by Illumina when they began marking the Genome Analyser (before the software was ready of course).
I am running a 64 bit Ubuntu...
Forum: Bioinformatics 06-15-2009, 03:07 PM
Replies: 65
Views: 31,030
Posted By Lesley
Thanks Roald, Thanks for your quick reply. I am...

Thanks Roald,
Thanks for your quick reply. I am still waiting for a reply officially through the trial manager.

The multiplexing instructions specify restriction sites and tags for each end....
Forum: Bioinformatics 06-11-2009, 04:50 PM
Replies: 65
Views: 31,030
Posted By Lesley
Hi all, I am just beginning to evaluate CLC...

Hi all,
I am just beginning to evaluate CLC Genomic Workbench for use with Illumina output and I am finding it so 454 orientated that it is driving me crazy with irrelevant instructions. Does anyone...
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