[maker-devel] unexpected alternate splicing

[Malcolm Hinsley]

Hi

We've just reinstalled maker 2.31 using mpich3 (3.1) and are delighted 
that file locking and other issues have been resolved. (I'm running 
maker across several nodes on the compute farm). The maker code is 
identical: I took the previous tar.gz archive and made a clean build.

Using a copy of a previous configuration to test, the only differences I 
can see is that the location of some files has changed (the working 
directory is on a different file system) and that I'm using a bigger 
(unfiltered) repeat library.

The previous maker run produced  17393 genes and 17393 mRNAs, and this 
new version gives 15927 genes and 21328  mRNA.

I have alt_splice=0:

$ grep splice ../maker_opts.ctl
alt_splice=0 #Take extra steps to try and find alternative splicing, 1 = 
yes, 0 = no


Any idea why I'm getting multiple mRNAs per gene?

-- 
malcolm hinsley | EnsEMBL Genomes | +44 (0)1223 49 4669
European Bioinformatics Institute (EMBL-EBI)
European Molecular Biology Laboratory
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United Kingdom