search

hputnam / Meth_Compare

5 stars 2 forks source link

Need all gene CpG intersection information to link to expression and GO #73

Closed hputnam closed 4 years ago

yaaminiv commented 4 years ago

The intersection files are large in the .gitignore but you can generate them in this script: https://github.com/hputnam/Meth_Compare/blob/master/scripts/Characterizing-CpG-Methylation-5x.ipynb

sr320 commented 4 years ago

another option would be adding to https://osf.io/x5waz/

On Jun 12, 2020, 9:35 AM -0700, Yaamini Venkataraman notifications@github.com, wrote:

The intersection files are large in the .gitignore but you can generate them in this script: https://github.com/hputnam/Meth_Compare/blob/master/scripts/Characterizing-CpG-Methylation-5x.ipynb — You are receiving this because you are subscribed to this thread. Reply to this email directly, view it on GitHub, or unsubscribe.

hputnam commented 4 years ago

@yaaminiv that would be great if you are able to do that. Then we don't need to double code it.

yaaminiv commented 4 years ago

@hputnam Oh! Forgot they're also on gannet, but I can add to OSF if needed:

Mcap: https://gannet.fish.washington.edu/spartina/Meth_Compare/analyses/Characterizing-CpG-Methylation-5x/Mcap/

Ex. filename: https://gannet.fish.washington.edu/spartina/Meth_Compare/analyses/Characterizing-CpG-Methylation-5x/Mcap/Meth12_R1_001_val_1_bismark_bt2_pe._5x.bedgraph.bed-mcGenes

Pact: https://gannet.fish.washington.edu/spartina/Meth_Compare/analyses/Characterizing-CpG-Methylation-5x/Pact/

Ex. filename: https://gannet.fish.washington.edu/spartina/Meth_Compare/analyses/Characterizing-CpG-Methylation-5x/Pact/Meth3_R1_001_val_1_bismark_bt2_pe._5x.bedgraph.bed-paGenes

sr320 commented 4 years ago

By all means, let’s not have anyone double code :) On Jun 12, 2020, 9:48 AM -0700, Hollie Putnam notifications@github.com, wrote:

@yaaminiv that would be great if you are able to do that. Then we don't need to double code it. — You are receiving this because you commented. Reply to this email directly, view it on GitHub, or unsubscribe.