pplacer

phylogenetic placement and downstream analysis

Pplacer places reads on a phylogenetic tree. guppy (Grand Unified Phylogenetic Placement Yanalyzer) yanalyzes them. rppr is a helpful tool for working with reference packages.

python3-compose

Python implementation of docker-compose file specification

docker-compose is a service management software built on top of docker. Define your services and their relationships in a simple YAML file, and let compose handle the rest.

readucks

Nanopore read de-multiplexer (read demux -> readux -> readucks, innit)

This package is inspired by the demultiplexing options in porechop but without the adapter trimming options - it just demuxes. It uses the parasail library with its Python bindings to do pairwise alignment which provides a considerable speed up over the seqan library used by porechop due to its low-level use of vector processor instructions.

elpa-xcscope

Interactively examine a C program source in emacs

Cscope is a program that generates index tables from C and C++ source files. It is also a client program that knows how to use the generated index tables to answer questions such as where is a symbol defined, where is a symbol referenced, etc.

libghc-rio-orphans-prof

Orphan instances for the RIO type in the rio package; profiling libraries

This Haskell library provides orphan instances for the `RIO` data type. Currently supports:

libghc-casa-types-prof

types for Casa; profiling libraries

This Haskell library implements types for Casa, a Content-Addressable Storage Archive provided by FP Complete.