sphde-utils

Shared Persistent Heap Data Environment library utilities

SPHDE is composed of two major software layers: The Shared Address Space (SAS) layer provides the basic services for a shared address space and transparent, persistent storage. The Shared Persistent Heap (SPH) layer organizes blocks of SAS storage into useful functions for storing and retrieving data.

spaced

alignment-free sequence comparison using spaced words

Spaced (Words) is a new approach to alignment-free sequence comparison. While most alignment-free algorithms compare the word-composition of sequences, spaced uses a pattern of care and don't care positions. The occurrence of a spaced word in a sequence is then defined by the characters at the match positions only, while the characters at the don't care positions are ignored. Instead of comparing the frequencies of contiguous words in the input sequences, this new approach compares the frequencies of the spaced words according to the pre-defined pattern. An information-theoretic distance measure is then used to define pairwise distances on the set of input sequences based on their spaced-word frequencies. Systematic test runs on real and simulated sequence sets have shown that, for phylogeny reconstruction, this multiple-spaced-words approach is far superior to the classical alignment-free approach based on contiguous word frequencies.

libelpa4

Eigenvalue SoLvers for Petaflop-Applications

sprai

single-pass sequencing read accuracy improver

Sprai is a tool to correct sequencing errors in single-pass reads for de novo assembly. It is originally designed for correcting sequencing errors in single-molecule DNA sequencing reads, especially in Continuous Long Reads (CLRs) generated by PacBio RS sequencers. The goal of Sprai is not maximizing the accuracy of error-corrected reads. Instead, Sprai aims at maximizing the continuity (i.e., N50 contig length) of assembled contigs after error correction.

ros-nav-msgs

Messages relating to Robot OS nav, definitions

This package is part of Robot OS (ROS), and provides the common messages used to interact with the 'nav' https://wiki.ros.org/navigation stack.

r-cran-circular

GNU R Circular Statistics

Circular Statistics, from "Topics in circular Statistics" (2001) S. Rao Jammalamadaka and A. SenGupta, World Scientific.