Added BCF Parser and INDEL DNM Detection
cleanup
output ALT, updated README
Merge branch 'master' of ssh://git.code.sf.net/p/denovogear/code
variable mu based on indel lengths, internal lookup table generation, modified lookup table,  cmd line parameters
cleanup
cleanup
paired sample DNG detection
updated pair-lookup
started phasing, not complete
parental phasing p2
phasing cleanup
cleanup
phaser cleanup
cleanup phaser
phaser- cleanup, reads gt3 in pgt_f, reads inh & var in dnm_f
remove lookup file creation
lookup-cleanup, tprob set to 1 for all dnm cases
cleanup files
furthur cleanup