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biomedicalinformaticsgroup / Sargasso

Sargasso disambiguates mixed-species high-throughput sequencing data.
http://biomedicalinformaticsgroup.github.io/Sargasso/
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bug when one of the paired-end read does not map at all #67

Closed hxin closed 6 years ago

hxin commented 6 years ago

sambamba view /home/xinhe/Sargasso_testsuite_data/pre_built_data/hmr/sorted_reads/CTR2.mouse.bam| grep 'NS500125:220:HYFNHBGXX:1:11101:12368:1047'

This read breaks the code because it is a paired-end read but the other half does not map at all.