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Old 08-16-2011, 08:15 AM   #1
shuang
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Location: IL

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Default velvet's output: Roadmaps

Velvet assembler outputs 2 files: Sequences and Roadmaps.

What is Roadmaps about? And where can I use it? Thanks!
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Old 08-18-2011, 01:43 PM   #2
aloliveira
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Hi,

check the velvet paper for more informations,
Quote:
For each k-mer observed in the set of reads, the hash table records the ID of the first read encountered containing that k-mer and the position of its occurrence within that read. Each k-mer is recorded simultaneously to its reverse complement. To ensure that each k-mer cannot be its own reverse complement, k must be odd. This first scan allows us to rewrite each read as a set of original k-mers combined with overlaps with previously hashed reads. We call this new representation of the read’s sequence the “roadmap.”
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