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Replaced Stringtie merge with gffcompare for merging of stringtie
assembly results.
Downgrade stringtie to version 1.3.6.
Make it possible to not run Stringtie.
When multiple TPM/FPKM values are returned for a single gene by
stringtie, they will now be added together in the multi-sample
expression tables. Previously only the last value encountered would be
used.
Updated default docker image for collect-columns (now uses
version 1.0.0 instead of 0.2.0).
