Updated BEDPE reporting strategy for BAM files.
1. If intrachromosomal, choose the leftmost end. 2. Else, choose the first mate.
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- bin/bamToBed 0 additions, 0 deletionsbin/bamToBed
- bin/pairToBed 0 additions, 0 deletionsbin/pairToBed
- obj/bamToBed.o 0 additions, 0 deletionsobj/bamToBed.o
- obj/pairToBed.o 0 additions, 0 deletionsobj/pairToBed.o
- obj/pairToBedMain.o 0 additions, 0 deletionsobj/pairToBedMain.o
- src/bamToBed/bamToBed.cpp 51 additions, 15 deletionssrc/bamToBed/bamToBed.cpp
- src/bamToBed/exons.bed.proper.coverage 0 additions, 0 deletionssrc/bamToBed/exons.bed.proper.coverage
- src/intersectBed/intersectBed.cpp 23 additions, 21 deletionssrc/intersectBed/intersectBed.cpp
- src/pairToBed/both 944 additions, 0 deletionssrc/pairToBed/both
- src/pairToBed/both.ids 472 additions, 0 deletionssrc/pairToBed/both.ids
- src/pairToBed/pairToBed.cpp 208 additions, 144 deletionssrc/pairToBed/pairToBed.cpp
- src/pairToBed/pairToBed.h 38 additions, 15 deletionssrc/pairToBed/pairToBed.h
- src/pairToBed/pairToBedMain.cpp 13 additions, 4 deletionssrc/pairToBed/pairToBedMain.cpp
- src/pairToBed/xor.ids 4537 additions, 0 deletionssrc/pairToBed/xor.ids
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