The header in SOAPdenovo output ??
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5.9 years ago
Picasa ▴ 610

Hi,

My output from the assembler SOAPdenovo2 is formatted like this

> scaffold148     17.4
> scaffold149     37.1

What is that second number ? Is it the coverage ? If yes I don't understand what it means in an assembly.

I mean the coverage is normally the number of time that a base is represented/sequenced. What does it mean in that case ??

soap fasta • 1.5k views
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Nobody got an answer ?

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What command in SOAPdenovo2 is that output from?

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SOAPdenovo-63mer all -s config.txt -K 31 -p 30 -o out

the config.txt is the formatted soapdenovo file with data path

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Did you have a look at Appendix B on soapdenovo2 webpage?

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5.7 years ago
Prasad ★ 1.6k

this might help

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