Assembly returns error, says reads are unpaired when they are
de novo assembly & analysis of Illumina sequence data
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#22 Assembly returns error, says reads are unpaired when they are
I was trying to assemble a bacterial genome using the A5 assembler, and it returned the following two errors:
* ERROR: Unable to identify any properly paired reads
* ERROR: Please check that you have provided at least one library of paired-end reads with names conforming to the Illumina read pair convention.
The metadata of the run (SRR1023846) says that the data is paired illumina reads. Upon inspection of the read files, I notice that the fastq sequence identifiers are in the form
* @SRR1023846.1.1 1 length=250
* @SRR1023846.1.2 1 length=250
instead of the standard
@<instrument>:<run number="">:<flowcell id="">:<lane>:<tile>:<x-pos>:<y-pos> <read>:<is filtered="">:<control number="">:<index sequence=""></index></control></is></read></y-pos></x-pos></tile></lane></flowcell></run></instrument>
Do you think this is the reason why the A5 assembler is returning the errors?
