Mercurial > repos > iuc > ampvis2_alpha_diversity

diff test-data/rich-sparse.biom @ 0:b54f72135f58 draft
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ampvis2 commit 7c0ecbffdb5e993f5af7e3b52c424c2761fb91d3"
author: iuc
date: Mon, 04 Apr 2022 10:26:31 +0000
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/rich-sparse.biom	Mon Apr 04 10:26:31 2022 +0000
@@ -0,0 +1,66 @@
+{
+     "id":"w00asdt",
+     "format": "1.0.0",
+     "format_url": "http://biom-format.org",
+     "type": "OTU table",
+     "generated_by": "QIIME revision XYZ",
+     "date": "2011-12-19T19:00:00",
+     "rows":[
+        {"id":"GG_OTU_1", "metadata":{"taxonomy":["k__Bacteria", "p__Proteobacteria", "c__Gammaproteobacteria", "o__Enterobacteriales", "f__Enterobacteriaceae", "g__Escherichia", "s__"]}},
+        {"id":"GG_OTU_2", "metadata":{"taxonomy":["k__Bacteria", "p__Cyanobacteria", "c__Nostocophycideae", "o__Nostocales", "f__Nostocaceae", "g__Dolichospermum", "s__"]}},
+        {"id":"GG_OTU_3", "metadata":{"taxonomy":["k__Archaea", "p__Euryarchaeota", "c__Methanomicrobia", "o__Methanosarcinales", "f__Methanosarcinaceae", "g__Methanosarcina", "s__"]}},
+        {"id":"GG_OTU_4", "metadata":{"taxonomy":["k__Bacteria", "p__Firmicutes", "c__Clostridia", "o__Halanaerobiales", "f__Halanaerobiaceae", "g__Halanaerobium", "s__Halanaerobiumsaccharolyticum"]}},
+        {"id":"GG_OTU_5", "metadata":{"taxonomy":["k__Bacteria", "p__Proteobacteria", "c__Gammaproteobacteria", "o__Enterobacteriales", "f__Enterobacteriaceae", "g__Escherichia", "s__"]}}
+        ],
+     "columns":[
+        {"id":"Sample1", "metadata":{
+                                 "BarcodeSequence":"CGCTTATCGAGA",
+                                 "LinkerPrimerSequence":"CATGCTGCCTCCCGTAGGAGT",
+                                 "BODY_SITE":"gut",
+                                 "Description":"human gut"}},
+        {"id":"Sample2", "metadata":{
+                                 "BarcodeSequence":"CATACCAGTAGC",
+                                 "LinkerPrimerSequence":"CATGCTGCCTCCCGTAGGAGT",
+                                 "BODY_SITE":"gut",
+                                 "Description":"human gut"}},
+        {"id":"Sample3", "metadata":{
+                                 "BarcodeSequence":"CTCTCTACCTGT",
+                                 "LinkerPrimerSequence":"CATGCTGCCTCCCGTAGGAGT",
+                                 "BODY_SITE":"gut",
+                                 "Description":"human gut"}},
+        {"id":"Sample4", "metadata":{
+                                 "BarcodeSequence":"CTCTCGGCCTGT",
+                                 "LinkerPrimerSequence":"CATGCTGCCTCCCGTAGGAGT",
+                                 "BODY_SITE":"skin",
+                                 "Description":"human skin"}},
+        {"id":"Sample5", "metadata":{
+                                 "BarcodeSequence":"CTCTCTACCAAT",
+                                 "LinkerPrimerSequence":"CATGCTGCCTCCCGTAGGAGT",
+                                 "BODY_SITE":"skin",
+                                 "Description":"human skin"}},
+        {"id":"Sample6", "metadata":{
+                                 "BarcodeSequence":"CTAACTACCAAT",
+                                 "LinkerPrimerSequence":"CATGCTGCCTCCCGTAGGAGT",
+                                 "BODY_SITE":"skin",
+                                 "Description":"human skin"}}
+        ],
+     "matrix_type": "sparse",
+     "matrix_element_type": "int",
+     "shape": [5, 6], 
+     "data":[[0,2,1],
+             [1,0,5],
+             [1,1,1],
+             [1,3,2],
+             [1,4,3],
+             [1,5,1],
+             [2,2,1],
+             [2,3,4],
+             [2,5,2],
+             [3,0,2],
+             [3,1,1],
+             [3,2,1],
+             [3,5,1],
+             [4,1,1],
+             [4,2,1]
+            ]
+    }