bedtools

suite of utilities for comparing genomic features

The BEDTools utilities allow one to address common genomics tasks such as finding feature overlaps and computing coverage. The utilities are largely based on four widely-used file formats: BED, GFF/GTF, VCF, and SAM/BAM. Using BEDTools, one can develop sophisticated pipelines that answer complicated research questions by streaming several BEDTools together.

root-plugin-gui-guibuilder

GUI editor plug-in for ROOT

lfc-server-postgres

LCG File Catalog (LFC) server with postgres database backend

The LCG File Catalog (LFC) keeps track of the locations of the physical replicas of the logical files in a distributed storage system. This package provides an LFC server that uses postgres as its database backend.

smalt-examples

Sequence Mapping and Alignment Tool (examples)

SMALT efficiently aligns DNA sequencing reads with a reference genome. Reads from a wide range of sequencing platforms, for example Illumina, Roche-454, Ion Torrent, PacBio or ABI-Sanger, can be processed including paired reads.

libghc-numbers-prof

Various number types; profiling libraries

It contains instances of the numerical classes for a variety of different numbers: (computable) real numbers, arbitrary precision fixed numbers, arbitrary precision floating point numbers, differentiable numbers, symbolic numbers, natural numbers, interval arithmetic.

libqt4-private-dev

Qt 4 private development files