Yes.

You will get something like this for library statistics with 2 sets of
pairs (like in your example):

[megaman@rohan PrettyGood-2012-03-11]$ less ERS006509
+Ray-2012-03-11-Mithrandir/Assembly/LibraryStatistics.txt 

NumberOfPairedLibraries: 2

LibraryNumber: 0
 InputFormat: TwoFiles,Paired
 DetectionType: Automatic
 File: Sample/ERR011301_1.fastq.gz
  NumberOfSequences: 12786171
 File: Sample/ERR011301_2.fastq.gz
  NumberOfSequences: 12786171
 Distribution: Assembly/Library0.txt
 Peak 0
  AverageOuterDistance: 136
  StandardDeviation: 7

LibraryNumber: 1
 InputFormat: TwoFiles,Paired
 DetectionType: Automatic
 File: Sample/ERR011302_1.fastq.gz
  NumberOfSequences: 8850301
 File: Sample/ERR011302_2.fastq.gz
  NumberOfSequences: 8850301
 Distribution: Assembly/Library1.txt
 Peak 0
  AverageOuterDistance: 349
  StandardDeviation: 18




On Thu, 2012-03-15 at 21:09 -0700, habibr wrote:
> Hi Sebastien,
> 
> is it possible to use Ray on several PE reads plus SE reads? 
> For example, Ray -p A_R1.fastq A_R2.fastq -p B_R1.fastq B_R2.fastq -s 
> A_SE.fastq -s B_SE.fastq ?
> 
> Habib
> 
> --
> Reply to this email directly or view it on GitHub:
> http://github.com/inbox/36050990#reply



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