Originally posted by yuwang321
View Post
Seqanswers Leaderboard Ad
Collapse
Announcement
Collapse
No announcement yet.
X
-
-
Actually in sff file, reads are not really trimmed, trimming points are labled. That's why we can use sffinfo -notrim to get the original reads. So input to GS software, they will find the trimming labels and use the the HQ parts of each reads.
Leave a comment:
-
Short answer: yes. Longer answer: probably, but I don't know the details. It is not possible to switch of this extra trimming.
Leave a comment:
-
Newbler triming question
Hello, I am using Newbler on cDNA transcriptome analysis. My input 454 sequences are trimmed ones. It seems that Newbler still trim them in a mysterious way which can't be found anywhere in the manual. Here are lines from 454NewblerMetrics.txt
runData
{
file
{
path = "/xxx/xxx/xxx_trimmed.sff";
numberOfReads = 771320, 715547;
numberOfBases = 274290567, 273109839;
}
Is Newbler trimming my sequences according to quality?
Thanks for your answers.
YuTags: None
Latest Articles
Collapse
-
by seqadmin
The field of epigenetics has traditionally concentrated more on DNA and how changes like methylation and phosphorylation of histones impact gene expression and regulation. However, our increased understanding of RNA modifications and their importance in cellular processes has led to a rise in epitranscriptomics research. “Epitranscriptomics brings together the concepts of epigenetics and gene expression,” explained Adrien Leger, PhD, Principal Research Scientist...-
Channel: Articles
04-22-2024, 07:01 AM -
-
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 -
ad_right_rmr
Collapse
News
Collapse
Topics | Statistics | Last Post | ||
---|---|---|---|---|
Started by seqadmin, Yesterday, 11:49 AM
|
0 responses
15 views
0 likes
|
Last Post
by seqadmin
Yesterday, 11:49 AM
|
||
Started by seqadmin, 04-24-2024, 08:47 AM
|
0 responses
16 views
0 likes
|
Last Post
by seqadmin
04-24-2024, 08:47 AM
|
||
Started by seqadmin, 04-11-2024, 12:08 PM
|
0 responses
61 views
0 likes
|
Last Post
by seqadmin
04-11-2024, 12:08 PM
|
||
Started by seqadmin, 04-10-2024, 10:19 PM
|
0 responses
60 views
0 likes
|
Last Post
by seqadmin
04-10-2024, 10:19 PM
|
Leave a comment: