Will Van Treuren
Will Van Treuren
@dadahan solution worked for me
Hi @caetera - I am trying to use the gist you shared to do some processing of my own, but I am having trouble getting it to work. If I...
Hi @caetera - thanks very much for the help! I did a little more digging and here's what I've found. I extracted the raw file using TRFP as follows (the...
I just uploaded the .raw file. I feel very stupid, but there is one thing I forgot to mention that is probably important. Using standard FreeStyle, we could not extract...
Hi @griquelme - the issue happens as well when `_mzml._build_offset_list_indexed` is used. My mzml files are actually indexed, but to figure out where the error was happening I was forcing...
thanks for the response @fanli-gcb. > Second, how long is your amplicon? Your quality profiles suggest that you may be sequencing off the end of the template entirely. The amplicon...
> truncQ and truncLen shouldn't affect the fraction of sequences retained unless the truncated reads are no longer at least minLen in length. Since the default is minLen=20, I don't...
@fanli-gcb - thanks very much for taking a look. where should i send the files?
@fanli-gcb @benjjneb Thanks very much for the suggestions; this was very helpful. > I could probably write several paragraphs on my opinions on the best way to filter, but I...