changeset 17:d2483487e077 draft

planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/cardinal commit eeeb69463a2037a6ee620b9223cb152fcc39f1b0
author galaxyp
date Wed, 19 Apr 2023 22:39:10 +0000
parents 12dde78d554b
children ba92b59cd529
files test-data/ComBat_results_Example_processed_file.ibd test-data/ComBat_results_Example_processed_file.imzml test-data/ComBat_results_Example_processed_file.imzml.txt test-data/ComBat_results_Example_processed_file_preprocessing.pdf test-data/Combat_40pixel.ibd test-data/Combat_40pixel.imzML test-data/Example_processed_ComBat_annotation.tabular test-data/annotation_40pixel.tabular test-data/preprocessing_results_combat_40pixel.ibd test-data/preprocessing_results_combat_40pixel.imzml test-data/preprocessing_results_combat_40pixel.imzml.txt test-data/preprocessing_results_combat_40pixel.pdf
diffstat 12 files changed, 2879 insertions(+), 0 deletions(-) [+]
line wrap: on
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+++ b/test-data/ComBat_results_Example_processed_file.imzml.txt	Wed Apr 19 22:39:10 2023 +0000
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+-rw-r--r-- 1 ubuntu ubuntu 1663576 Feb 15 11:25 ibd
+-rw-r--r-- 1 ubuntu ubuntu   18593 Feb 15 11:25 imzml
Binary file test-data/ComBat_results_Example_processed_file_preprocessing.pdf has changed
Binary file test-data/Combat_40pixel.ibd has changed
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--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/Example_processed_ComBat_annotation.tabular	Wed Apr 19 22:39:10 2023 +0000
@@ -0,0 +1,10 @@
+spectra_names	x_values	y_values	batch_id	condition
+xy_1_1	1	1	B_1	A
+xy_2_1	2	1	B_1	B
+xy_3_1	3	1	B_1	A
+xy_1_2	1	2	B_1	B
+xy_2_2	2	2	B_2	A
+xy_3_2	3	2	B_2	B
+xy_1_3	1	3	B_2	A
+xy_2_3	2	3	B_2	B
+xy_3_3	3	3	B_2	A
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/annotation_40pixel.tabular	Wed Apr 19 22:39:10 2023 +0000
@@ -0,0 +1,41 @@
+xy_x_y	x	y	TMA_Batch	Sample	Tissue
+xy_10_29	10	29	TMA_397	TMA_397_C-2_Tumor	Tumor
+xy_22_14	22	14	TMA_402	TMA_402_C-3_Stroma	Stroma
+xy_22_27	22	27	TMA_394	TMA_394_A-1_Stroma	Stroma
+xy_23_7	23	7	TMA_402	TMA_402_C-3_Stroma	Stroma
+xy_24_26	24	26	TMA_394	TMA_394_A-1_Stroma	Stroma
+xy_24_6	24	6	TMA_402	TMA_402_C-3_Stroma	Stroma
+xy_29_45	29	45	TMA_394	TMA_394_A-1_Tumor	Tumor
+xy_2_10	2	10	TMA_402	TMA_402_C-3_Tumor	Tumor
+xy_33_41	33	41	TMA_394	TMA_394_A-1_Tumor	Tumor
+xy_34_43	34	43	TMA_394	TMA_394_A-1_Tumor	Tumor
+xy_34_5	34	5	TMA_400	TMA_400_A-4_Tumor	Tumor
+xy_36_3	36	3	TMA_400	TMA_400_A-4_Tumor	Tumor
+xy_38_3	38	3	TMA_400	TMA_400_A-4_Tumor	Tumor
+xy_3_4	3	4	TMA_402	TMA_402_C-3_Tumor	Tumor
+xy_48_5	48	5	TMA_400	TMA_400_A-4_Stroma	Stroma
+xy_49_11	49	11	TMA_400	TMA_400_A-4_Stroma	Stroma
+xy_49_9	49	9	TMA_400	TMA_400_A-4_Stroma	Stroma
+xy_51_6	51	6	TMA_400	TMA_400_A-4_Stroma	Stroma
+xy_52_8	52	8	TMA_400	TMA_400_A-4_Stroma	Stroma
+xy_53_11	53	11	TMA_400	TMA_400_A-4_Stroma	Stroma
+xy_53_14	53	14	TMA_400	TMA_400_A-4_Stroma	Stroma
+xy_55_8	55	8	TMA_400	TMA_400_A-4_Stroma	Stroma
+xy_5_24	5	24	TMA_397	TMA_397_C-2_Tumor	Tumor
+xy_5_5	5	5	TMA_402	TMA_402_C-3_Tumor	Tumor
+xy_62_6	62	6	TMA_398	TMA_398_E-2_Tumor	Tumor
+xy_64_9	64	9	TMA_398	TMA_398_E-2_Tumor	Tumor
+xy_6_3	6	3	TMA_402	TMA_402_C-3_Tumor	Tumor
+xy_6_4	6	4	TMA_402	TMA_402_C-3_Tumor	Tumor
+xy_6_5	6	5	TMA_402	TMA_402_C-3_Tumor	Tumor
+xy_6_7	6	7	TMA_402	TMA_402_C-3_Tumor	Tumor
+xy_71_8	71	8	TMA_398	TMA_398_E-2_Stroma	Stroma
+xy_73_6	73	6	TMA_398	TMA_398_E-2_Stroma	Stroma
+xy_73_7	73	7	TMA_398	TMA_398_E-2_Stroma	Stroma
+xy_74_7	74	7	TMA_398	TMA_398_E-2_Stroma	Stroma
+xy_7_53	7	53	TMA_397	TMA_397_C-2_Stroma	Stroma
+xy_8_55	8	55	TMA_397	TMA_397_C-2_Stroma	Stroma
+xy_8_56	8	56	TMA_397	TMA_397_C-2_Stroma	Stroma
+xy_9_52	9	52	TMA_397	TMA_397_C-2_Stroma	Stroma
+xy_9_53	9	53	TMA_397	TMA_397_C-2_Stroma	Stroma
+xy_9_56	9	56	TMA_397	TMA_397_C-2_Stroma	Stroma
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+++ b/test-data/preprocessing_results_combat_40pixel.imzml	Wed Apr 19 22:39:10 2023 +0000
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--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/preprocessing_results_combat_40pixel.imzml.txt	Wed Apr 19 22:39:10 2023 +0000
@@ -0,0 +1,4 @@
+imzML file:
+total 132
+-rw-r--r-- 1 ubuntu ubuntu 63648 Feb  7 17:01 ibd
+-rw-r--r-- 1 ubuntu ubuntu 66384 Feb  7 17:01 imzml
Binary file test-data/preprocessing_results_combat_40pixel.pdf has changed