cen: A dataset ready to use with CENTIPEDE.
In slowkow/CENTIPEDE.tutorial: A tutorial for running CENTIPEDE.
Description
A dataset ready to use with CENTIPEDE.
Usage
1
Format
A list with two items:
- mat
A numeric matrix with counts of read start sites.
Each row corresponds to a genomic site flanked by 100 bp. A single row
contains information about the positive strand and the negative strand.
So, for example, this dataset uses a transcription factor motif of length
13 bp and flanks of length 100 bp. Therefore, the matrix has
2 * (100 + 13 + 100) = 426 columns.
- regions
A dataframe.
Each row corresponds to a genomic site, in the same order as the
matrix of counts. This has information from a run of FIMO using the 13 bp
motif for STAT4.
slowkow/CENTIPEDE.tutorial documentation built on May 30, 2019, 3:06 a.m.
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.
Description
A dataset ready to use with CENTIPEDE.
Usage
1 |
Format
A list with two items:
- mat
A numeric matrix with counts of read start sites. Each row corresponds to a genomic site flanked by 100 bp. A single row contains information about the positive strand and the negative strand. So, for example, this dataset uses a transcription factor motif of length 13 bp and flanks of length 100 bp. Therefore, the matrix has 2 * (100 + 13 + 100) = 426 columns.
- regions
A dataframe. Each row corresponds to a genomic site, in the same order as the matrix of counts. This has information from a run of FIMO using the 13 bp motif for STAT4.
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.
Embedding an R snippet on your website
Add the following code to your website.
For more information on customizing the embed code, read Embedding Snippets.