Does DeepMod support 6mA detection in human sample?

WGLab / DeepMod

DeepMod: a deep-learning tool for genomic-scale, strand-sensitive and single-nucleotide based detection of DNA modifications

Other

99 stars 35 forks source link

Closed blanleung closed 5 years ago

blanleung commented 5 years ago

Issue #1 mentioned 6mA analysis in HX1 but manuscript mentioned performance prediction of 6mA in E. coli and C. reinhardtii.

liuqianhn commented 5 years ago

Hi @benhur974 , DeepMod support 6mA detection. Please refer to https://github.com/WGLab/DeepMod/blob/master/docs/Description%20of%20well-trained%20models.md#13-rnn_conmoda_p100wd21_f7ne1u0_4 for the well-trained model for 6mA prediction. But please note that you can improve the 6mA prediction if you have ground-truth 6mA for a new 6mA model.

blanleung commented 5 years ago

Hi @liuqianhn , Thank you for the link. I did noticed you did detection on synthetic 6mA but I was hoping to see the same on native 6mA in human :).

liuqianhn commented 5 years ago

Hi @benhur974 , we have no trained model on human right now, since no larger data of 6mA in human is available. Please correct me if I am wrong.

blanleung commented 5 years ago

Not that I am aware of.

Thanks for the feedbacks!