Rob Patro's repositories
carlworld-beamer-slide-theme
Carl Compliant Beamer slide theme
ScalaIntro
A small set of Scala examples & links for a brief Scala introduction given at UMD
scala-utils
A random assortment of utilities for the Scala Language that I use in my projects
xsbt-proguard-plugin
A plugin for XSBT to facilitate the use of ProGuard to create single jars for XSBT-managed projects
Jellyfish
Fork of the jellyfish kmer counter. Here is the description copied from their site: JELLYFISH is a tool for fast, memory-efficient counting of k-mers in DNA. A k-mer is a substring of length k, and counting the occurrences of all such substrings is a central step in many analyses of DNA sequence. JELLYFISH can count k-mers using an order of magnitude less memory and an order of magnitude faster than other k-mer counting packages by using an efficient encoding of a hash table and by exploiting the "compare-and-swap" CPU instruction to increase parallelism. JELLYFISH is a command-line program that reads FASTA and multi-FASTA files containing DNA sequences. It outputs its k-mer counts in an binary format, which can be translated into a human-readable text format using the "jellyfish stats" command. See the documentation below for more details.