Tianhua Liao

icon indicating an email [email protected]

icon company CUHK icon location CHINA icon location Mal De Coucoun// PhD student of CUHK// major in biology and devote to solve bioinformatic problems.

Results 5 comments of Tianhua Liao

How can DeepVirFinder ensure the accuracy of long contig predictions?

Dear author, I also have concerns about that issue. What I want to do is predicting the phage/prophage from the assembled genome sequences. Thus generally we need to apply it...

DeepVirFinder gets stuck on some sequences

I also get the same situation. I guess mostly is a problem of multiprocessing since it usually gets stuck when the second time of 'processing line' was called. Which mentioned...

use command instead of locate

maybe replace `sh.locate` with `sh.find` in phigaro/helper.py would fix your problem..

use command instead of locate

the command `sh.locate` rely on the binary file `locate` in your PATH. Maybe it doesn't install at your OS. @snayfach Just install it or replace `sh.locate` with `sh.find`

Hybrid assemblie gives more contigs than "long-read only"

Hi, recently I also encouter this issue. In my data, I think the 'breaking' is resulted by the wrongly short-read assembly. To test it, you could also try long-read only...