caftools is distributed in the bio-linux-assembly-converstion-tools package.

This package contains a number of scripts useful for converting between different assembly formats, including formats used with assemblies of sequence generated using new sequencing technologies.

The commands available through caftools are:

• caf_check_pads
• fix_quals
• caf_build_consensus
• cafcat
• sdict
• acedb
• libsrc
• caf2gap
• caf2ace
• phrapcons
• caf_pad
• caf2phrap
• cafmerge
• nd_clip
• templates
• caf_depad
• caf2fastq
For further details of these programs and how to use them, please refer to the Userguide, linked in the remote docs section below.