Create pairedEndStrandPhasing.pl
Create pairedEndStrandPhasing.pl

Switches the strand of alignments in a bam file. Can treat pair/mates and single-end reads differently. 

Useful if sequencing libraries are of type "1+-,1-+,2++,2--" (Lexogene library) or "1++,1--,2+-,2-+" (default Illumina library) and follow up tools consider pair/mates as single reads with their respective strand information.
fabou-uobaf/Helferlein,fabou-uobaf/Helferlein