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isovic / graphmap

GraphMap - A highly sensitive and accurate mapper for long, error-prone reads http://www.nature.com/ncomms/2016/160415/ncomms11307/full/ncomms11307.html Note: This was the original repository which will no longer be officially maintained. Please use the new official repository here:
https://github.com/lbcb-sci/graphmap2
MIT License
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Support BAM as input #15

Closed andreas-wilm closed 8 years ago

andreas-wilm commented 8 years ago

Would be nice if Graphmap would support read input from BAM files, with the option to retain existing tags like insertion and deletion qualities for example. Also, the new SMRT Portal / Pacbio versions will produce BAM as native sequencing output apparently.

isovic commented 8 years ago

The latest release (v0.3.0) supports reading sequences from SAM and GFA files. Hope this will do for now? :-)

Ivan

andreas-wilm commented 8 years ago

Where's the thumbs up icon?