Closed JiguangPeng closed 4 years ago
I have read the method of the your nature paper. when should we use mgaps to cluster maximal exact matches before svmu? which is not described here.
That's the older version. You can find that pipeline here: https://github.com/mahulchak/svmu/tree/v0.1beta
On Thu, Apr 19, 2018 at 6:04 AM 神说要有光 notifications@github.com wrote:
I have read the method of the your nature paper. when should we use mgaps to cluster maximal exact matches before svmu? which is not described here.
— You are receiving this because you commented.
Reply to this email directly, view it on GitHub https://github.com/mahulchak/svmu/issues/5#issuecomment-382620663, or mute the thread https://github.com/notifications/unsubscribe-auth/AHMD6BnlTkTkp7AKYq5KSrF5UI8Dzv0eks5tqCjegaJpZM4TYOuq .
thank you for the reply. I will try that
I have not tested it on human genome. You can run it and see. you could also try to repeatmask your genome before running svmu on it. There are some issues with highly heterozygous or highly repetitive genomes like maize. I am working on some updates to mitigate them.