-
QuantQC website: scp.slavovlab.net/QuantQC
-
Leduc et al., 2024, Nature Protocols, doi: 0.1038/s41596-024-01033-8 | Preprint
-
nPOP sample preparation Website | Download data from origninal publication | Download data from protocol
-
Article reporting the development of nPOP: Leduc et al., 2022, Genome Biology | Preprint
This application has been tested on R >= 3.5.0, OSX 10.14 / Windows 7/8/10. R can be downloaded from the main R Project page or downloaded with the RStudio Application.
There are two required packages that are not installed by default.
To install the QuantQC package, run
devtools::install_github("https://github.com/Andrew-Leduc/QuantQC")
library(QuantQC)
-
Download all the data reports from the "search" section of MassIVE MSV000093494.
-
Download the "AnalysisFromProtocol" folder from the QuantQC Github page. In the R script "Analysis.R", change the path names for the relevant meta data files. There are two types. The linker file which connects the file names from the MS runs to the wells of the plate they were run from, and the cellenONE cell sorting files. These files are origninally named XXX_isolated.xls and are auto generated by the cellenONE in the folder created when the user performs cell sorting to the glass slide.
-
Run the Analysis.R script line by line following the comments in the script.
The manuscript is freely available on bioRxiv: Leduc et al., 2023 and at Nature Protocols: Leduc et al., 2024
For more information, contact Slavov Laboratory or directly Andrew Leduc
The QuantQC code is distributed by an MIT license.
Please feel free to contribute to this project by opening an issue or pull request.
For any bugs, questions, or feature requests, please use the GitHub issue system to contact the developers.