Hello !
I have Illumina sequences that I have to remap onto the reference genome.
First I want to trim the data according to quality and length using Sickle.
Apparently, the treshold mostly used for quality is 20.
But what about length ???
I beleive that if I keep too short sequences they will map in different places in the reference genome and tgis is not good.
But what treshold use ?
35 ?
I have to say that I have different runs with different read length (from 41 to 84).
Thanks a lot for your help.
Muriel
I have Illumina sequences that I have to remap onto the reference genome.
First I want to trim the data according to quality and length using Sickle.
Apparently, the treshold mostly used for quality is 20.
But what about length ???
I beleive that if I keep too short sequences they will map in different places in the reference genome and tgis is not good.
But what treshold use ?
35 ?
I have to say that I have different runs with different read length (from 41 to 84).
Thanks a lot for your help.
Muriel
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