This is the PhiX lane--anyone seen bases diverge like this? What would cause this? Thanks
Seqanswers Leaderboard Ad
Collapse
Announcement
Collapse
No announcement yet.
X
-
Did you use all defaults for the solexa pipeline? Chastity filter of 0.6?
Mid way through the read, there comes a point where A and C, G and T become quite dependent on each other, and the pipeline uses all kinds of matrices to call one from the other.
What is the dna sample, if I may ask!--
bioinfosm
Comment
-
Did you use all defaults for the solexa pipeline? Chastity filter of 0.6?
Mid way through the read, there comes a point where A and C, G and T become quite dependent on each other, and the pipeline uses all kinds of matrices to call one from the other.
What is the dna sample, if I may ask!
Huh?
The only corrections the Solexa pipeline performs are crosstalk and phasing corrections. Crosstalk is determined from the first cycle only, and the same matrix is applied to all cycles. The Phasing correction is cycle dependent but is unlikely to cause anything like this.
Would need to see more plots (all intensities/called intensities) in order to figure out what's happening in this case.
Comment
Latest Articles
Collapse
-
by seqadmin
Proteins are often described as the workhorses of the cell, and identifying their sequences is key to understanding their role in biological processes and disease. Currently, the most common technique used to determine protein sequences is mass spectrometry. While still a valuable tool, mass spectrometry faces several limitations and requires a highly experienced scientist familiar with the equipment to operate it. Additionally, other proteomic methods, like affinity assays, are constrained...-
Channel: Articles
04-04-2024, 04:25 PM -
-
by seqadmin
Despite advancements in sequencing platforms and related sample preparation technologies, certain sample types continue to present significant challenges that can compromise sequencing results. Pedro Echave, Senior Manager of the Global Business Segment at Revvity, explained that the success of a sequencing experiment ultimately depends on the amount and integrity of the nucleic acid template (RNA or DNA) obtained from a sample. “The better the quality of the nucleic acid isolated...-
Channel: Articles
03-22-2024, 06:39 AM -
ad_right_rmr
Collapse
News
Collapse
Topics | Statistics | Last Post | ||
---|---|---|---|---|
Started by seqadmin, 04-11-2024, 12:08 PM
|
0 responses
22 views
0 likes
|
Last Post
by seqadmin
04-11-2024, 12:08 PM
|
||
Started by seqadmin, 04-10-2024, 10:19 PM
|
0 responses
24 views
0 likes
|
Last Post
by seqadmin
04-10-2024, 10:19 PM
|
||
Started by seqadmin, 04-10-2024, 09:21 AM
|
0 responses
19 views
0 likes
|
Last Post
by seqadmin
04-10-2024, 09:21 AM
|
||
Started by seqadmin, 04-04-2024, 09:00 AM
|
0 responses
52 views
0 likes
|
Last Post
by seqadmin
04-04-2024, 09:00 AM
|
Comment