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→Paired-end assembly: Added some knowledge
abyss-pe is a driver script implemented as a Makefile and runs a single-end assembly, as described above, and the following commands, which must be found in your PATH:
* ABYSS - the single-end assembler* AdjList - finds overlaps of length k-1 between contigs* KAligner '''**''' - aligns reads to contigs* ParseAligns '''**''' - finds pairs of reads in alignments* DistanceEst '''**''' - estimates distances between contigs* Overlap - find overlaps between blunt contigs* SimpleGraph - finds paths between pairs of contigs* MergePaths - merges consistent paths* Consensus - for a colour-space assembly, convert the colour-space contigs to nucleotide contigs<small>'''**''' These steps can be run in parallel (see below)</small>
== Paired-end assembly of multiple fragment libraries ==
