Question: SPAdes assembler error "The number of reads in file with interlaced reads is ODD"
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gravatar for maksjytov.nail
13 months ago by
maksjytov.nail0 wrote:

Hello. I try to assembly genomes from this project with SPAdes assembler with parameters --12 ( File with interlaced forward and reverse paired-end reads.) but I get the error "The number of reads in file with interlaced reads is ODD"! What I do wrong? I read manual many times but this didn't help.

assembly • 654 views
ADD COMMENTlink written 13 months ago by maksjytov.nail0
2

The error is telling you what is wrong. There is an odd number of reads belonging to either R1/R2. This generally happens if you scan/trim the two read files independently and a read is dropped out of one file but not its mate.

You can fix the original files by using repair.sh from BBMap suite.

ADD REPLYlink modified 13 months ago • written 13 months ago by genomax59k
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