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How do I sort up mapped soap files by coordinate? Is there any software I can use? Or I need to program it myself?
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Err hello. sorry to interrupt here. this is my first post on this forum. i dont know to to create one.
its just that im having problem with soap2. anybody successfully run soap2? im still stuck after extracting the file. dont understand the command line options. i dont know how to start. i just want to run a sample to try out.
anybody has some sort of tutorial?
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Hey,Originally posted by hus View Post
give SOAP3 a try, you can find it here: http://soap.genomics.org.cn/soap3.html . It is much faster since it uses GPU power. Also there is a "tutorial" how to run it...Comment
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Originally posted by evonne16 View Post
Hey,
on a Linux machine you can use the UNIX -sort command line option, i guess.
Don't know the paramters exactly but 'man sort' should do the job. On a Windows PC i guess you have to wirte your own script.
Best PhilComment
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Oh hey sphil,
Thank you very much. I'll try that.
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@sphil: could you possibly help me with an issue I have running SOAP3 in a CUDA-4 environment? thanks!SysAdmin & ICT consultant
http://about.me/nicola.lositoComment
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Actually i have not done anything yet with CUDA but maybe i can help anyway. Just pm me or post it here that everyone else can join the discussion!Comment
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Thanks!Originally posted by sphil View Post
I made a new thread since it's a specific question ---> http://seqanswers.com/forums/showthread.php?p=71251SysAdmin & ICT consultant
http://about.me/nicola.lositoComment
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I’m not a sequencing expert. I’m a purification scientist who uses NGS to evaluate workflows my group develops. With this perspective, we think about the sample first and the NGS workflow second. The sequencer is an exceptionally honest reporter, but it can only report on what you give it, so whether you get clean, interpretable data from an NGS workflow is largely determined before you begin.
Here are nine questions we think about, in roughly the order they matter, before...06-18-2026, 07:11 AM -
Data variability is still an issue in sequencing technologies despite the advances in reproducibility and accuracy of these platforms. But the problem does not originate in the sequencing itself, but in the previous steps, before the sample reaches the sequencer.
The first step is collection, followed by preservation and sample preparation for analysis. Most scientists overlook those steps, but not being careful might just be skewing the experiment’s results.
...06-02-2026, 10:05 AM
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