Binding and Expression Target Analysis (BETA) is a software package that integrates ChIP-seq of transcription factors or chromatin regulators with differential gene expression data to infer direct target genes. BETA has three functions (1) to predict whether the factor has activating or repressive function; (2) to infer the factor's target genes; (3) to identify the motif of the factor and its collaborators which might modulate the factor's activating or repressive function. http://cistrome.org/BETA/index.html doi: 10.1038/nprot.2013.150 |
hg clone https://testtoolshed.g2.bx.psu.edu/repos/jjohnson/cistrome_beta
| Repository package_numpy_1_7 revision 55a7a5e9d63f owned by devteam (prior install required) |
| Repository package_numpy_1_7 revision 55a7a5e9d63f owned by devteam (prior install required) |
| Repository package_r_2_15_0 revision 3a70cdc41d21 owned by devteam |
| Name | Version | Type | |
|---|---|---|---|
| R | 2.15.0 | package | |
| beta | 1.0.6 | package | |
| numpy | 1.7.1 | package | |
| Name | Description | Version | Minimum Galaxy Version |
|---|---|---|---|
| Predict the factors (TFs or CRs) direct target genes by combining the binding and expression data | 0.1.0 | any | |
| Predict the factors (TFs or CRs) direct target genes by combining the binding and expression data, then do motif analysis on target regions | 0.1.0 | any | |
| Predict the factors (TFs or CRs) direct target genes by only binding data | 0.1.0 | any | |