Can DeepMod use to other single bacteria such as Pseudomonas aeruginosa? Which command can I use?

WGLab / DeepMod

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

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Can DeepMod use to other single bacteria such as Pseudomonas aeruginosa? Which command can I use? #62

Open rhyer0418 opened 1 month ago

rhyer0418 commented 1 month ago

Is the '--modfile' necessary? Wether could be used for Pseudomonas aeruginosa?

liuqianhn commented 1 month ago

@rhyer0418 --modfile is necessary. --modfile is independent on species, but on different versions of basecallers. Since deepmod is not updated with latest basecaller, please refer to DeepMod2 with latest basecallers.