Hi Brian. Yes, the reads have been adapter-trimmed. Moreover alignment toward long sequences (whole reference) gives good alignment rate and low while using short (miRBase) sequences.
Seqanswers Leaderboard Ad
Collapse
Announcement
Collapse
No announcement yet.
X
-
Originally posted by moses122 View PostI got this problem too. Did you figure out why exactly alignment is better for long sequences than miRBase?
Comment
-
Originally posted by mziemann View PostPlease don't align directly to the mature.fa, only about 50% of miR reads are the exact mature sequence, you are missing a lot of sequence diversity that will map clearly to the harpin.fa. Calling 3p and 5p arm switching on the other hand, that's a different story.
Comment
Latest Articles
Collapse
-
by seqadmin
The field of immunogenetics explores how genetic variations influence immune responses and susceptibility to disease. In a recent SEQanswers webinar, Oscar Rodriguez, Ph.D., Postdoctoral Researcher at the University of Louisville, and Ruben Martínez Barricarte, Ph.D., Assistant Professor of Medicine at Vanderbilt University, shared recent advancements in immunogenetics. This article discusses their research on genetic variation in antibody loci, antibody production processes,...-
Channel: Articles
11-06-2024, 07:24 PM -
ad_right_rmr
Collapse
News
Collapse
Topics | Statistics | Last Post | ||
---|---|---|---|---|
Started by seqadmin, 11-22-2024, 07:36 AM
|
0 responses
61 views
0 likes
|
Last Post
by seqadmin
11-22-2024, 07:36 AM
|
||
Started by seqadmin, 11-22-2024, 07:04 AM
|
0 responses
81 views
0 likes
|
Last Post
by seqadmin
11-22-2024, 07:04 AM
|
||
Started by seqadmin, 11-21-2024, 09:19 AM
|
0 responses
76 views
0 likes
|
Last Post
by seqadmin
11-21-2024, 09:19 AM
|
||
Started by seqadmin, 11-08-2024, 11:09 AM
|
0 responses
320 views
0 likes
|
Last Post
by seqadmin
11-08-2024, 11:09 AM
|
Comment