Latest
Open
RNA-Seq
ChIP-Seq
SNP
Assembly
Forum
Planet
All »
Home
Log In
Question: Question About Using Bowtie
0
gravatar for William Light
7.3 years ago by
William Light • 50
William Light • 50 wrote:
I am trying to use bowtie to assign reads to the s. Cerevisiae genome. I have data from paired end SOLiD sequencing with two unique six base pair barcodes. Can I use bowtie to make csfasta and qual files from my mixed original data split by bar code? I know I can use the trim option to remove the barcode, but how do I specify one only?
alignment bowtie • 990 views
ADD COMMENT • link •
modified 7.3 years ago • written 7.3 years ago by William Light • 50
0
gravatar for Jennifer Hillman Jackson
7.3 years ago by
Jennifer Hillman Jackson ♦ 25k
United States
Jennifer Hillman Jackson ♦ 25k wrote:
Hello William, The tools in "NGS: QC and manipulation", especially those in the sub-section "AB-SOLiD data" can do the manipulations needed before mapping. It may be helpful to view the screencast at http://usegalaxy.org, center pane, quickie #9. Hopefully this helps to get you started, Best, Jen Galaxy team -- Jennifer Jackson http://usegalaxy.org http://galaxyproject.org/Support
ADD COMMENT • link written 7.3 years ago by Jennifer Hillman Jackson ♦ 25k
0
gravatar for William Light
7.3 years ago by
William Light • 50
William Light • 50 wrote:
I have created fixed-step wiggle files for a project that I am working on, but I am wondering if there is an easy way to transform the values by a correction factor to account for differences in in the number of reads for two different samples (one had 1.5 million or so, the other had 6.6million).
ADD COMMENT • link written 7.3 years ago by William Light • 50
Please log in to add an answer.

Similar posts • Search »

Content
Help
Access
Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 16.09
Traffic: 165 users visited in the last hour