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zhongzhd / ont_m6a_detection

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try to reproduce figure 2 in supplementary data #9

Open DelphIONe opened 1 year ago

DelphIONe commented 1 year ago

Hi,

Thanks you for your paper, it's very a beautiful and useful work! I'm trying to reproduce roc curves (fig2, supp.data) to make sure I'm using the tools with the right parameters but I can't find :

  1. the transcriptome fasta file for mapping
  2. the lists used as reference for the positions detected by miCLIP2 and MeRIPseq. Could you consider adding this here on the github repository for example ?

I have searched the GSExx data for all the references you mention in your article, but I'm afraid I'll have to do this work again (peak calling, peak selection, ...). :-/

Your feedback would be a great help. Thanks a lot,

DelphIONe commented 1 year ago

Hi,

I think this is good for the transcriptome fasta file. But I would really appreciate it if you could give the true positive of miCLIP2 and MeRIPseq to do roc curves...

Thanks again,

zhongzhd commented 1 year ago

I'm sorry, I've been very busy and couldn't reply to messages in a timely manner. Can you give me your email address? I can directly send you the source data of the figure.

DelphIONe commented 1 year ago

Thanks for your reply. My email address : delphine.naquin@i2bc.paris-saclay.fr

Thanks again

hengjwj commented 8 months ago

HI @zhongzhd, would it be ok to make public the lists used as reference for the positions detected by miCLIP2 and MeRIPseq? If not, could I also get a copy of them via email?

zhongzhd commented 5 months ago

Can you give me your email address? I can directly send you the source data of the figure.

hengjwj commented 5 months ago

Hi @zhongzhd, it's S190075@e.ntu.edu.sg

Thanks!