Adding comment to the double use of SAM/BAM format
Minor corrections in commentaries and in some code nomenclatures
Adding comments for future improvements
Adding comments for future improvements bis
Adding the TODO in samTools.pm
Adding the TODO in pairing.pm
Modif perldoc in bwa.pm
Redaction of the README.md file, v1
Adding the TODO in picardTools.pm
Adding the TODO in gatk.pm
Adding the TODO in toolbox.pm
small modifs in toolbox.pm