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Program/lib to extract bases from positions in fastafiles.

notes 5march 2015

copied latest version of bgzf faidx and friends from htslib to make work on latest bgzip files from SAMtools

notes 30 april 2019 (added plink output)

Examples:

1. head plink.bim |./refFinder/refFinder pseudohaploid.fa.gz plink full >mytped.tped
2. echo “chr7 10010” | ./refFinder/refFinder hg19.fa.gz

notes 5may 2023

Updated Makefile so it would compile on most recent compilers. Updated from travis to actions. Another usefull example of how to run

3. echo “chr7:100-150”|./refFinder/refFinder hg19.fa.gz