Tweet
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.
-
-
I think I might have figured it out, if you add the prefix chr to the number it seems to run without a segmentation fault. This seems like poor coding and even worse documentation. -
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
-
Right, if you have your own Ubuntu machine or a vm it's easy but if your admins are anything like mine good luck because their github package is messed up and so source compiling doesn't work without a lot of work.Comment
-
Kheloyar – Everything You Need to Know About Kheloyaar Login and Kheoyar Id
If you are looking for an online gaming platform that offers a user-friendly experience, Kheloyar has become a name that many users search for. Whether you're interested in creating a new account, accessing your dashboard through Kheloyaar Login, or learning how to obtain a Kheoyar Id, understanding the platform's features and account process is essential.
This guide explains everything you need to know about...Yesterday, 01:13 AM -
Genomics studies in neuroscience face a special challenge due to the brain’s complexity and scarcity of samples. Mapping changes in cell type and state using conventional next-generation sequencing methods remains challenging. Advances in technologies like single-cell sequencing, spatial transcriptomics, and long-read sequencing have opened the door to deeper studies of the brain and diseases like Alzheimer’s, amyotrophic lateral sclerosis (ALS), and schizophrenia.
...07-09-2026, 11:10 AM -
Cancer survival rates have significantly increased in the last few decades in the United States, reaching a combined 70% 5-year survival rate by 2021. Behind this number, there are years of research to find new therapies, drug targets, and early detection methods. But there is one core challenge that keeps slowing down these advances, and it’s about drug resistance.
There is no single reason why many patients don’t respond to treatment as expected. Cancer is...07-08-2026, 05:17 AM
Comment