methylation-analysis icon indicating copy to clipboard operation
methylation-analysis copied to clipboard
verified publisher icon jts

input file for methylation_plots.R make_emissions_figure

Open athulmenon opened this issue 9 years ago • 4 comments

what is the input for methylation_plots.R make_emissions_figure

athulmenon avatar Jun 15 '16 09:06 athulmenon

It is a set of .tsv files, called from the main pipeline script here:

https://github.com/jts/methylation-analysis/blob/master/pipeline.make#L365

jts avatar Jun 15 '16 13:06 jts

what is the input files for making emission figures and make_mean_shift_by_position_figure. we are unable to follow the pipeline make.

athulmenon avatar Jun 16 '16 05:06 athulmenon

They are tab-separated files containing the measured event levels for a particular k-mer, as output by methyltrain. This script is not meant to be run standalone, it is part of the pipeline we used for the nanopore methylation paper.

jts avatar Jun 16 '16 15:06 jts

Thanks for the quick response. It does run but i got emission plot for one model. I am not getting plot for methylated model.

athulmenon avatar Jun 17 '16 11:06 athulmenon