TrepDF: Trep data calculated from syncSeq[["data"]]
In DzmitryGB/Repliscope: Replication Timing Profiling using DNA Copy Number
Description
Usage
Format
References
Examples
Description
Trep is median replication time, expressed in minutes after release G1 arrest.
It is calculated from multiple relative copy number datapoints across timeseries
of a cell cycle experiment. For every genomic bin, a sigmoid function is fitted
and its midpoint is reported.
Usage
1
Format
data frame with 11341 rows and 5 variables:
- chrom
short chromosome name
- chromStart
left chromosome coordinate
- chromEnd
right chromosome coordinate
- Trep
calculated Trep value
- TrepErr
error from sigmoid function fitting
References
Müller et al. (2014) NAR 42(1):e3
(PubMed)
Examples
1
DzmitryGB/Repliscope documentation built on Dec. 5, 2019, 3:16 a.m.
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Description Usage Format References Examples
Description
Trep is median replication time, expressed in minutes after release G1 arrest. It is calculated from multiple relative copy number datapoints across timeseries of a cell cycle experiment. For every genomic bin, a sigmoid function is fitted and its midpoint is reported.
Usage
1 |
Format
data frame with 11341 rows and 5 variables:
- chrom
short chromosome name
- chromStart
left chromosome coordinate
- chromEnd
right chromosome coordinate
- Trep
calculated Trep value
- TrepErr
error from sigmoid function fitting
References
Müller et al. (2014) NAR 42(1):e3 (PubMed)
Examples
1 |
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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