Dear all,
I am working with 454 sequence from a transcriptome of an organism 2 million years diverged from the rat. De novo assembly using Newbler was very disappointing, so we are trying other software that uses the reference genome as a guide....however, most of these alignment software are designed for shorter reads (<60 bp) or don't feed well into an assembly viewing software like EagleViewer/Consed.
MOSAIK is our best bet right now, but we are having challenges getting it to run on our machine (64 bit vs 32 bit issues). Any other suggestions?
Thanks!
I am working with 454 sequence from a transcriptome of an organism 2 million years diverged from the rat. De novo assembly using Newbler was very disappointing, so we are trying other software that uses the reference genome as a guide....however, most of these alignment software are designed for shorter reads (<60 bp) or don't feed well into an assembly viewing software like EagleViewer/Consed.
MOSAIK is our best bet right now, but we are having challenges getting it to run on our machine (64 bit vs 32 bit issues). Any other suggestions?
Thanks!
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