| Retrieve data from Information Retrieval and Integration System for cancer genomic data from The Cancer Genome Atlas (IRIS-TCGA). IRIS-TCGA is an online web service for searching, retrieving and integrating genomic data: http://bioinf.iasi.cnr.it/iristcga/index.php. Example usage: I need RNASeq - gene quantification experiments about the BRCA (Breast Invasive Carcinoma) disease, and I need to differentiate experiments on tumor tissue and normal tissue without considering clinical information. Additionally I need to consider only the patient for which have been sequenced both the tumor tissue and the normal tissue. 1. select the disease BRCA (please wait some seconds, this disease has a lot of metadata); 2. insert information about the first query q1: Platform = IlluminaHiSeq_RNASeq , Data Type = RNASeq.gene , Level = Level_3 , Tissue = tumoral; 3. add a row and insert information about the second query q2: Platform = IlluminaHiSeq_RNASeq , Data Type = RNASeq.gene , Level = Level_3 , Tissue = normal; 4. write the following integration formula: q1∩q2; 5. submit the request clicking the "Compute" button. |
hg clone https://toolshed.g2.bx.psu.edu/repos/iuc/data_source_iris_tcga
| Repository package_zlib_1_2_8 revision 411985b46ae8 owned by iuc (prior install required) |
| Repository package_readline_6_3 revision ca1a9400d4e1 owned by iuc (prior install required) |
| Repository package_bzlib_1_0 revision af4887e1f595 owned by iuc (prior install required) |
| Repository package_xz_5_0_5 revision 944f93d45594 owned by iuc (prior install required) |
| Repository package_sqlite_3_8_3 revision c8a5c11cc921 owned by iuc (prior install required) |
| Repository package_gdbm_1_11 revision ed2537bccffc owned by iuc (prior install required) |
| Repository package_ncurses_6_0 revision 0efde9889efd owned by iuc (prior install required) |
| Repository package_python_2_7_10 revision bd7165ea6526 owned by iuc |
| Repository package_ncurses_6_0 revision 0efde9889efd owned by iuc (prior install required) |
| Repository package_libtool_2_4 revision 7f67694b167c owned by iuc (prior install required) |
| Name | Version | Type | |
|---|---|---|---|
| galaxy_json_data_source | 1.0.0 | package | |
| python | 2.7.10 | package | |
| Name | Description | Version | Minimum Galaxy Version |
|---|---|---|---|
| server | 1.0.0 | any | |