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I have download the source code of the ALLPATHS from the MIT. But I can not find any information about how to compile or install. Where can I get the information about how to install and use?
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The manual seems to be a separate download to the .tgz package:
ftp://ftp.broad.mit.edu/pub/crd/ALLP....0.manual.docx -
/usr/lib/gcc/x86_64-redhat-linux/4.3.2/../../../../include/c++/4.3.2/backward/auto_ptr.h:196
./kmer_freq/EvaluateStrongKmers.cc:302:
when I compile the software, it report a bug. The above files seem to be something wrong.Comment
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I think I solve the problem after I change the system language from Chinese to English.Comment
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Hi anyone1985Originally posted by anyone1985 View Post
Are you running AllPaths? Does it work? What version are you using? I tried with version 3.3.2 and i always get error that says -
Looks like the command PrepareAllPathsInput did not complete
Did you get this error?
What command do you give for TARGET=import and TARGET=Standard
thanks in advance
himalayaComment
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Love this - good data definitely starts from good input, and poor input can only give relatively poor data. I particularly like the mention of Nanodrop/absorbance based methods for quantification. It's such a toss up if you'll get an accurate reading or what amounts to a randomly generated number, and a lot of library/sequencing related issues can be traced back to poor quant.Today, 11:43 AM
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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... -
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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