outside mothur: remove pre-clusters associated with negative control from all groups: bash commands?

Question

[careymsuehs]

Hi. I've been using the miseq mothur pipeline. After pre-clustering I would like to remove negative-control-associated preclusters from all groups/samples. I'm looking for any help in creating the bash commands that would allow this. I'm very new to bash and looking at sed, would appreciate any help and pointers from the community.

[Santosh Anand]

The Q is too specific to the field. It would be more useful if you summarize the inputs and the output that you are expecting to get using bash.