| EDGE-pro (Estimated Degree of Gene Expression in PROkaryotes) is an efficient software system to estimate gene expression levels in prokaryotic genomes from RNA-seq data. EDGE-pro uses Bowtie2 for alignment and then estimates expression directly from the alignment results. EDGE-pro includes routines to assign reads aligning to overlapping gene regions accurately. 15% or more of bacterial genes overlap other genes, making this a significant problem for bacterial RNA-seq, one that is generally ignored by programs designed for eukaryotic RNA-seq experiments. |
hg clone https://toolshed.g2.bx.psu.edu/repos/crs4/edge_pro
| Repository package_bowtie2_2_1_0 revision 017a00c265f1 owned by devteam |
| Name | Version | Type | |
|---|---|---|---|
| bowtie2 | 2.1.0 | package | |
| edge-pro | 1.3.1 | package | |
| Name | Description | Version | Minimum Galaxy Version |
|---|---|---|---|
| Gene expression in Prokaryotes | 1.0.2 | any | |
| 1.0.1 | any | ||
| extension | type | mimetype | subclass |
|---|---|---|---|
| ptt | galaxy.datatypes.data:Text | text/plain | True |
| rnt | galaxy.datatypes.data:Text | text/plain | True |