Hello everybody,
I’m doing my first steps in NGS-bioinformatics and I find this forum very useful!
I’m using Maq easyrun.pl for mapping illumina GAII reads.
Does anybody know how can I filter areas with low coverage (e.g. <5 reads) *not for SNP calling*, i.e. low coverage of reads that were perfectly aligned?
Thanks,
icg
I’m doing my first steps in NGS-bioinformatics and I find this forum very useful!
I’m using Maq easyrun.pl for mapping illumina GAII reads.
Does anybody know how can I filter areas with low coverage (e.g. <5 reads) *not for SNP calling*, i.e. low coverage of reads that were perfectly aligned?
Thanks,
icg