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Forum: The Pipeline 04-09-2014, 12:47 AM
Replies: 8
Views: 18,793
Posted By ZFHans
I don't know about others but mine ships tomorrow...

I don't know about others but mine ships tomorrow so for now I still consider it in the pipeline, although its getting towards the end of the pipe :-)
Forum: The Pipeline 02-15-2014, 12:54 AM
Replies: 80
Views: 201,244
Posted By ZFHans
The invitation is specific to the point of: "we...

The invitation is specific to the point of: "we look forward to working with you in the coming weeks."
More details will follow on the portal website that they have set up.
Forum: The Pipeline 02-14-2014, 05:51 AM
Replies: 80
Views: 201,244
Posted By ZFHans
At least we can now start to judge for ourselves....

At least we can now start to judge for ourselves.
We got an invitation to join MAP and I suspect I'm not the only one.
I'm hoping we can soon produce some real data and make comparisons based on...
Forum: Sample Prep / Library Generation 10-07-2013, 12:59 AM
Replies: 1
Views: 1,865
Posted By ZFHans
Hi, We once made some RNAseq libraries from...

Hi,

We once made some RNAseq libraries from Tribolium castaneum. A trace is added as attachment. Our Bioanalyzer got confused by the trace and refused to give a RIN value. We continued with...
Forum: Pacific Biosciences 09-20-2012, 12:26 AM
Replies: 55
Views: 19,015
Posted By ZFHans
Hi Shane, At the moment I am trying to...

Hi Shane,

At the moment I am trying to compare LSC vs. PacBioToCA, and if time and hardware permits SmrtPipe. I noticed that PacBioToCA reduces the dataset from 1 GB to around 400MB. Haven't...
Forum: Pacific Biosciences 08-08-2012, 05:41 AM
Replies: 55
Views: 19,015
Posted By ZFHans
Hi LSC, As it turned out it was my mistake...

Hi LSC,

As it turned out it was my mistake all along. I'm using quake corrected Illumina reads as SR input. The fasta headers of these reads contain spaces, and that was causing problems in...
Forum: Pacific Biosciences 08-07-2012, 11:24 PM
Replies: 55
Views: 19,015
Posted By ZFHans
Hi LSC, Thanks for your quick reply. If my...

Hi LSC,

Thanks for your quick reply. If my current run with 2.08 fails I'll try 2.07

In the meantime I looked at the bowtie2 manual...
Forum: Pacific Biosciences 08-07-2012, 10:32 PM
Replies: 55
Views: 19,015
Posted By ZFHans
Hi LSC, Thanks for your reply. I'll try the...

Hi LSC,

Thanks for your reply. I'll try the native format again, but could you tell which version of novoalign you used. Could it be that novocraft changed something in their native format?
...
Forum: Pacific Biosciences 08-07-2012, 05:55 AM
Replies: 55
Views: 19,015
Posted By ZFHans
Hi LSC, I'm trying to improve a 1.6 GB...

Hi LSC,

I'm trying to improve a 1.6 GB genome with Pacbio data. Celera read correction is slow and so I welcome your effort. I am trying to run LSC 0.2 but encounter problems. First, in some of...
Forum: Bioinformatics 08-07-2012, 03:13 AM
Replies: 9
Views: 4,410
Posted By ZFHans
Hi LSC, I'm trying to improve a 1.6 GB...

Hi LSC,

I'm trying to improve a 1.6 GB genome with Pacbio data. Celera read correction is slow and so I welcome your effort. I am trying to run LSC 0.2 but encounter problems. First, in some of...
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