Merge pull request #7 from sm15/master

update vcfstats for the changed API to bcf_gt_type
Extended rbuf API; Enabled hard/soft filtering of SnpGap and IndelGap
Do not advertise -Q as it is currently not supported
tabix: Autodetect file format by checking the file name suffix
Updated usage strings to correspond to actual commands
tabix: Complain when unknown -p argument is given
query: Renames -p to -t to be consistent with the other commands
Updated manpage
annotate: backup commit
Deleted binary files accidently commited
mcall: Initial attempt to improve trio calling. This is a backup commit of version 2.
Updated man page and description of -r and -t made consistent across all bcftools
Merge branch 'master' into trios
stats: Fix of off-by-one error in AF printout (stats not affected, only bin labeling)
vcfmerge: Added "-m none" option
call: Average MQ annotation; filter: allow both TAG and INFO/TAG in filters
Merge branch 'master' into trios
call: Updated version of -C trio
roh: backup commit
mcall: Fixed initialization of trio calls