This folder contains scripts to re-generate benchmarking and analysis of geneBasis
method for targeted gene panel design (preprint).
Specifically, it contains next folders/scripts:
functions
folder contains scripts with all subfunctions to perform gene search (the package version is available here) as well as additional functions to benchmark the method.generateData
folder contains scripts to generate data used for this project.analysis
folder contains scripts to perform analysis for this project.scGeneFit
folder contains scripts to generate marker selections using method scGeneFit.scmer
folder contains scripts to generate selections using method SCMER.- Relevant data including source data and data generated with scripts from
generateData
can be found on Dropbox: https://www.dropbox.com/sh/sy70359szw982hl/AACXyVsiCKImd2M5q7_Dfhpca?dl=0. Please note, that we have put External data in the subfolder./External/
.
If you have any issues and questions re functions or analysis, please submit an issue on GitHub or contact here: alsu-at-ebi.ac.uk.