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GregoryFaust / samblaster

samblaster: a tool to mark duplicates and extract discordant and split reads from sam files.
MIT License
225 stars 30 forks source link

added -m/-metricsFile flag to output duplication metrics #17

Closed dakl closed 5 years ago

dakl commented 9 years ago

I decided to patch it myself. I'm not too familiar with C++ so I've basically imitated how the other files are opened, written to and closed. Example output: 

TOTAL_READS  DISCORDANT_READ_PAIRS  SPLIT_READS  UNMAPPED_READS  UNMATED_READS  DUPLICATE_READS  PCT_DUPLICATE_READS
4596         0                      0            0               0              1229             26.74

cheers

dakl commented 8 years ago

Is this interesting to you? I think it's useful for many users.

dakl commented 7 years ago

BUMP

marcelm commented 7 years ago

I would be interested in this as well.

dakl commented 7 years ago

Hello?

ewels commented 6 years ago

+1 for this feature..

dakl commented 5 years ago

I'm gonna close this, since it's been four years without a response.