Question: Question Regarding: Fastq Quality Trimmer
0
gravatar for Rahul Kanwar
7.0 years ago by
Rahul Kanwar • 10
Rahul Kanwar • 10 wrote:
Hello, I am running Galaxy locally and it has been performing flawlessly! I wanted to get more insight about this flag in the FASTQ Quality Trimmer program: Maximum number of bases to exclude from the window during aggregation Does it mean the number of 5' bases to exclude while the doing the trimming step [i.e. the sliding window starts this many bp after the read start] ? I would really appreciate if someone could shed more light on this. Thanks. regards, Rahul
galaxy • 1.2k views
ADD COMMENT • link • modified 7.0 years ago by Daniel Blankenberg ♦♦ 1.7k • written 7.0 years ago by Rahul Kanwar • 10
0
gravatar for Daniel Blankenberg
7.0 years ago by
Daniel Blankenberg ♦♦ 1.7k
United States
Daniel Blankenberg ♦♦ 1.7k wrote:
Hi Rahul, This is the maximum number of bases which can have their score not included when calculating the result of the selected aggregation function. For example, if you had a 5 base window with scores of 5,5,2,5 and 5, set aggregation to min score with a specified value of 4, with the action of ">=": 0, for maximum number of bases to exclude, would trim 1, for maximum number of bases to exclude, would not trim Thanks for using Galaxy, Dan
ADD COMMENT • link written 7.0 years ago by Daniel Blankenberg ♦♦ 1.7k
Please log in to add an answer.

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 16.09
Traffic: 175 users visited in the last hour