Has anyone been able to figure out how to get breakdancer_max to run with the -o flag? Everywhere I've looked people have posted this same issue and I haven't seen any response to get it working and the devs don't respond to the issue, it's very frustrating.
Seqanswers Leaderboard Ad
Collapse
Announcement
Collapse
No announcement yet.
X
-
I have not gotten the -o flag to work at all. At first, it could not read my bam file index (because I did not have one). Once I solved that I tried running it with -o 17 or -o chr17.
Neither produced a result. No errors, just made empty files. For the moment I am stumped.
Comment
-
I got -o to work in breakdancer-max1.2, apparently they fixed it there. However there are many unknown (UN) svs called and for some reason running each chr individually then running in -t mode is magnitudes of order faster than running the entire bam without -o or -t which is rather shocking.
Comment
-
Interesting. Good to hear the issue is resolved.
It appears I will not be able to get their latest version because of the methods they describe for installing it. Very frustrating. Maybe if I ask my computing admins very nicely they will do it for me...
Comment
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, Today, 11:49 AM
|
0 responses
11 views
0 likes
|
Last Post
by seqadmin
Today, 11:49 AM
|
||
Started by seqadmin, Yesterday, 08:47 AM
|
0 responses
16 views
0 likes
|
Last Post
by seqadmin
Yesterday, 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
|
Comment