Genome Analytics Lab of SCHARP at the Hutch

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1. profillic-hmmer profillic-hmmerPublic

   Modified versions of HMMER 3 programs to implement interoperability with galosh profiles (as generated by profillic).

   C++ 2 3

2. prolific prolificPublic

   A library of useful C++ classes for working with genomic sequence data and Profile HMMs.

   C++ 1

3. profuse profusePublic

   A suite of programs for working with Profile HMMs.

   C++ 1

4. profillic profillicPublic

   A suite of programs for estimating parameters of Profile HMMs using Baum-Welch, Conditional Baum-Welch, and both Unconditional and Conditional Quadratic Ascent.

   C++ 1

5. profillic-attic profillic-atticPublic

   Some code fitting into the prolific/profuse/profillic suite, but not yet ready for primetime

   C++