There should be a rule that lets a user look for groups of features that are no more than N bp apart, where the features can occur in any order, and are optionally oriented in the same direction.
My specific problem is that I want to be able to look for systems where a transposase is close to some set of cas genes, but the specific cas gene that is adjacent to the transposase could vary. For example, I want a rule that allows me to select systems that have either transposase-cas9-cas1-cas2 or cas1-cas2-cas9-transposase, and the gap between each feature is no more than 50 bp apart.
This would also allow for finding simple things like tnsA-tnsB-tnsC - we can do this with current rules but it's a bit tedious, and I feel like this is general enough of a problem that it should be a part of the library.
There should be a rule that lets a user look for groups of features that are no more than N bp apart, where the features can occur in any order, and are optionally oriented in the same direction.
My specific problem is that I want to be able to look for systems where a transposase is close to some set of cas genes, but the specific cas gene that is adjacent to the transposase could vary. For example, I want a rule that allows me to select systems that have either
transposase-cas9-cas1-cas2orcas1-cas2-cas9-transposase, and the gap between each feature is no more than 50 bp apart.This would also allow for finding simple things like
tnsA-tnsB-tnsC- we can do this with current rules but it's a bit tedious, and I feel like this is general enough of a problem that it should be a part of the library.