I have a bunch of genomes and sample reads and am looking for a way (software and method) that I can do a sequence alignment and get an output of the part(s) of the genome that were NOT covered by the sample reads. Any Ideas?
Seqanswers Leaderboard Ad
Collapse
Announcement
Collapse
No announcement yet.
X
-
-
Do the alignment and then use genomecov from bedtools:
-
DNASTAR's SeqMan NGen will automatically create features in regions where there is no coverage as well as a coverage report that lists these regions. They also have a autoscripting tool, SeqNinja that can create new sequences from these "coverage" features.
Comment
Latest Articles
Collapse
-
by seqadmin
The sequencing world is rapidly changing due to declining costs, enhanced accuracies, and the advent of newer, cutting-edge instruments. Equally important to these developments are improvements in sequencing analysis, a process that converts vast amounts of raw data into a comprehensible and meaningful form. This complex task requires expertise and the right analysis tools. In this article, we highlight the progress and innovation in sequencing analysis by reviewing several of the...-
Channel: Articles
Yesterday, 07:48 AM -
-
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 -
ad_right_rmr
Collapse
News
Collapse
Topics | Statistics | Last Post | ||
---|---|---|---|---|
Started by seqadmin, Today, 06:57 AM
|
0 responses
9 views
0 likes
|
Last Post
by seqadmin
Today, 06:57 AM
|
||
Started by seqadmin, Yesterday, 07:17 AM
|
0 responses
14 views
0 likes
|
Last Post
by seqadmin
Yesterday, 07:17 AM
|
||
Started by seqadmin, 05-02-2024, 08:06 AM
|
0 responses
19 views
0 likes
|
Last Post
by seqadmin
05-02-2024, 08:06 AM
|
||
Started by seqadmin, 04-30-2024, 12:17 PM
|
0 responses
23 views
0 likes
|
Last Post
by seqadmin
04-30-2024, 12:17 PM
|
Comment