JointSNVMix User Group

I also got the same error. I am having hard times with compiling alglib in MACosx. Could you

Hi Xiangqian, Apologies for the long delay. Theoretically JointSNVMix could be used on RNASeq data if

Hi Vue, The right way to run JointSNVMix (JSM) for one sample is to `train` and then `classify`. You

Hi Derek, The simplest option is to install a copy on Python in your home directory. This can be done

No worries at all - I just wanted to double check. On 8 December 2012 13:49, aroth <andrewjlroth@

Hi Andy, Thanks for the pointers. I figured out the problem: it was that the index files had to have

I've decided to downgrade to the latest stable 0.7 release; someone else on the project has had

Hi Andy, Yes, the classification step finished and I examined the output file and I can't see

Hi Andy, I apologize for the late reply, I got distracted with many side projects. I will run a

Hi, Andy, Thank you for your hints. It turned out I had pysam 0.41 installed in my user profile and

Hi Arielle, I'm happy to hear that it works. The fact that jsm.py does not run from the

It looks as though you are using version 0.8-b1, which is a beta of the next release. In this version

Thanks Andy, this was a big help On Feb 1, 8:06 pm, aroth <andrewjlr...@gmail.com> wrote: >

Thanks Sanwoo, I have updated the wiki. I hope to have a new version out next week which will remove

Hi again. I am processing tumour-normal genome pairs. My intended workflow was to use

That is a sensible threshold, which I have used in the past. JointSNVMix should be fairly sensitive

This releases fixes a bug caused when the FASTA reference files contained lower case characters. The

The sort order should not matter, and could even be different in the tumour and normal. The program

Just one thing to note when looking at the results of the JointSNVMix2 model. The count data shows

JointSNVMix only works with a single set of paired samples at this point. Is you interest in

A small bug fix release - Fixed unused gsl dependencies causing installation problems. - Fixed bug in

Dear developers, I am currently testing JointSNVMix (which looks very promising) on a pair of whole

This release is a fixes a bug in which the header and first line outputted by the classify command

The latest version of the JointSNVMix software package has been released. Highlights include : -