We are going to undertake some sequencing where our insert size is less than the sum of our read-lengths (paired end overlap).
We would like to merge our paired end reads to create single "psuedo-reads" with high quality all the way along.
A quick Google has shown me there are lots of software available for this
I've had a play with some dummy data using FLASH and PANDA-Seq and the results seem slightly different between them (different number of final read number and different distributions) despite using the same parameters.
Has anyone done a comparison of these packages before, or have a particular feel for what they think is the best performer?
We would like to merge our paired end reads to create single "psuedo-reads" with high quality all the way along.
A quick Google has shown me there are lots of software available for this
I've had a play with some dummy data using FLASH and PANDA-Seq and the results seem slightly different between them (different number of final read number and different distributions) despite using the same parameters.
Has anyone done a comparison of these packages before, or have a particular feel for what they think is the best performer?
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