BAM file necessary for quiver step?

PacificBiosciences / FALCON_unzip

Making diploid assembly becomes common practice for genomic study

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BAM file necessary for quiver step? #30

Closed ghost closed 8 years ago

ghost commented 8 years ago

Did I understand that correctly? For the quiver step in falcon_unzip I have to provide the reads in BAM format?

What is the most easy way to convert RSII data to BAM format?

pb-jchin commented 8 years ago

yes. PacBio is moving the read data format to BAM to easy some engineering work. It is a good thing. There is code called bax2bam that converts the bax.h5 to BAM file (with option --subread) in SMRTAnalysis 3.0.0+.

ghost commented 8 years ago

Great! Thanks for the quick aswer