| ### This is the fourth tool in the eQTL backend pipeline:
lookup, classification, frequency, sliding window frequency, hotspots, GO enrichment Link to the workflow (for import into Galaxy): http://chewbacca.bi.up.ac.za:8080/u/nanette/w/back-end-workflow-2 Combine x cM intervals (size of lookup bins; for example 2 cM), to be used in a sliding window approach. For 2 cM lookup bins: * For two intervals per sliding window, intervals smaller than 2 cM are combined with its two flanking 2 cM intervals. Calculate the number of eQTLs per sliding window (4 - 5.9 cM intervals). Calculate the number of genes per sliding window (4 - 5.9 cM intervals). * For three intervals per sliding window, intervals smaller than 2 cM are combined with 3 flanking 2 cM intervals. Calculate the number of eQTLs per sliding window (6 - 7.9 cM intervals). Calculate the number of genes per sliding window (6 - 7.9 cM intervals). |
hg clone https://toolshed.g2.bx.psu.edu/repos/nanettec/frequency_sliding
| Name | Version | Type | |
|---|---|---|---|
| R_SCRIPT_PATH | set_environment | ||
| Name | Description | Version | Minimum Galaxy Version |
|---|---|---|---|
| of eQTLs and genes | 5.0.0 | any | |