LEAP: Constructing Gene Co-Expression Networks for Single-Cell RNA-Sequencing Data Using Pseudotime Ordering

Advances in sequencing technology now allow researchers to capture the expression profiles of individual cells. Several algorithms have been developed to attempt to account for these effects by determining a cell's so-called `pseudotime', or relative biological state of transition. By applying these algorithms to single-cell sequencing data, we can sort cells into their pseudotemporal ordering based on gene expression. LEAP (Lag-based Expression Association for Pseudotime-series) then applies a time-series inspired lag-based correlation analysis to reveal linearly dependent genetic associations.

Install the latest version of this package by entering the following in R:
install.packages("LEAP")
AuthorAlicia T. Specht and Jun Li
Date of publication2016-09-13 21:19:05
MaintainerAlicia T. Specht <aspecht2@nd.edu>
LicenseGPL-2
Version0.2

View on CRAN

Files

inst
inst/doc
inst/doc/LEAP_Vignette.R
inst/doc/LEAP_Vignette.Rnw
inst/doc/lag_example.csv
inst/doc/lag_My_name.csv
inst/doc/MAC_symmetric_example.csv
inst/doc/LEAP_Vignette.synctex.gz
inst/doc/perm_example.csv
inst/doc/LEAP_Vignette.pdf
inst/doc/MAC_My_name.csv
inst/doc/MAC_example.csv
inst/doc/lag_symmetric_example.csv
NAMESPACE
data
data/example_data.rda
data/lag_example.RData
data/perm_example.rda
data/lag_example.rda
data/example_data.RData
data/MAC_example.RData
data/MAC_example.rda
data/perm_example.RData
data/MAC_symmetric.RData
data/MAC_symmetric.rda
R
R/MAC_lags.R R/MAC_counter.R R/MAC_perm.R
vignettes
vignettes/LEAP_Vignette.Rnw
vignettes/lag_My_name.csv
vignettes/MAC_My_name.csv
MD5
build
build/vignette.rds
build/partial.rdb
DESCRIPTION
man
man/MAC_counter.Rd man/MAC_symmetric.Rd man/MAC_lags.Rd man/lag_example.Rd man/MAC_example.Rd man/perm_example.Rd man/example_data.Rd man/LEAP-package.Rd man/MAC_perm.Rd

Questions? Problems? Suggestions? or email at ian@mutexlabs.com.

Please suggest features or report bugs with the GitHub issue tracker.

All documentation is copyright its authors; we didn't write any of that.