search

Coolgenome / iTALK

57 stars 22 forks source link

More documentation? #3

Open davisidarta opened 5 years ago

davisidarta commented 5 years ago

Hi!

I found this package spetacular! The main characteristic that draw my attention is the accurate visual illustrations of the LR interactions.

Where can I find more documentation to apply this to my own data? I've found the example to be relatively illustrative, but it still really confusing how to apply this to a user's own data. Besides, running the example script leads to plots that are different from the ones shown in the manuscript.

Are there any further instructions on how to change the labels location so that the network plot may be read and increase plot resolution, just like in the attached manuscript figure? Are there any other categories of LRI other than 'growth factor','other','cytokine' and 'checkpoint' to choose?

I'm eager to merge the analysis done by this package on my data with the rest of my results in order to start to write a manuscript. Any response will be greatly appreciated.

image image

Cheers

ywang65 commented 5 years ago

Hi,

There are some parameters in each function that you can adjust to set the plot according to your preference. Please find the explanation of each parameter/function here. The categories of LRIs were defined according to our knowledge and some of the publications we read. Actually you can use your own database with LRIs you interested in, or change the categories yourself according to your own research interests. The database I used can be download here.