Hii
I am new to this. So can any one please suggest me how to set the parameter in fastx-tool kit regardgin the follwing criteria ....selection of the reads will be based upon Q20 value where min read length will be >100bp at a strech..if its find low quality reads at the 5'/3' end it will simply trim those portion and will take the rest of the read.... i tried
$fastq_quality_filter -q 20 and then
$fastx_clipper -a 0 -l 100 (-a 0; as the sequences are already clipped for the adapter as well as barcodes)
it is something like, i want trim the reads based on their quality value..is it possible with Fastx-tool kit at all??
Thanx for any help in advance
Regards
I am new to this. So can any one please suggest me how to set the parameter in fastx-tool kit regardgin the follwing criteria ....selection of the reads will be based upon Q20 value where min read length will be >100bp at a strech..if its find low quality reads at the 5'/3' end it will simply trim those portion and will take the rest of the read.... i tried
$fastq_quality_filter -q 20 and then
$fastx_clipper -a 0 -l 100 (-a 0; as the sequences are already clipped for the adapter as well as barcodes)
it is something like, i want trim the reads based on their quality value..is it possible with Fastx-tool kit at all??
Thanx for any help in advance
Regards
Comment