Hi all,

I have a few doubts on using NGS analysis

1. how do we trim reads using quality scores (0.05), ambigous nucleotides in sequence trimming.

2. can we do vector trimming and if so what are the options available

3. How do we create list of unmapped reads in a mapping experiment

4. in the protocol, "create repository by assembler" for the de-novo sequence assembly, PP assumes a read generator to generate reads in the given region and then tries to assemble them. What is the use of one such group of reads?

if i want to incorporate reads that i have got from a wetlab experiment, how should i go with.