Mercurial > repos > bimib > marea
comparison Marea/marea.py @ 56:68375ead0ee4 draft
Uploaded
| author | bimib |
|---|---|
| date | Sun, 15 Mar 2020 11:28:47 -0400 |
| parents | 7b57a93ac594 |
| children | 69dfed656e0b |
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| 55:39238e5840ae | 56:68375ead0ee4 |
|---|---|
| 707 tmp_csv = tmp_csv.reset_index() | 707 tmp_csv = tmp_csv.reset_index() |
| 708 header = ['ids', 'P_Value', 'Log2(fold change)'] | 708 header = ['ids', 'P_Value', 'Log2(fold change)'] |
| 709 tmp_csv.to_csv(tab, sep = '\t', index = False, header = header) | 709 tmp_csv.to_csv(tab, sep = '\t', index = False, header = header) |
| 710 | 710 |
| 711 if create_svg or create_pdf: | 711 if create_svg or create_pdf: |
| 712 if args.rules_selector == 'HMRcore' or (args.rules_selector == 'Custom' | 712 if args.custom_rules == 'false' or (args.custom_rules == 'true' |
| 713 and args.yes_no == 'yes'): | 713 and args.custom_map != ''): |
| 714 fix_map(tmp, core_map, threshold_P_V, threshold_F_C, max_F_C) | 714 fix_map(tmp, core_map, threshold_P_V, threshold_F_C, max_F_C) |
| 715 file_svg = 'result/' + single_cluster + '_vs_ rest (SVG Map).svg' | 715 file_svg = 'result/' + single_cluster + '_vs_ rest (SVG Map).svg' |
| 716 with open(file_svg, 'wb') as new_map: | 716 with open(file_svg, 'wb') as new_map: |
| 717 new_map.write(ET.tostring(core_map)) | 717 new_map.write(ET.tostring(core_map)) |
| 718 | 718 |
| 746 tmp_csv = tmp_csv.reset_index() | 746 tmp_csv = tmp_csv.reset_index() |
| 747 header = ['ids', 'P_Value', 'Log2(fold change)'] | 747 header = ['ids', 'P_Value', 'Log2(fold change)'] |
| 748 tmp_csv.to_csv(tab, sep = '\t', index = False, header = header) | 748 tmp_csv.to_csv(tab, sep = '\t', index = False, header = header) |
| 749 | 749 |
| 750 if create_svg or create_pdf: | 750 if create_svg or create_pdf: |
| 751 if args.rules_selector == 'HMRcore' or (args.rules_selector == 'Custom' | 751 if args.custom_rules == 'false' or (args.custom_rules == 'true' |
| 752 and args.yes_no == 'yes'): | 752 and args.custom_map != ''): |
| 753 fix_map(tmp, core_map, threshold_P_V, threshold_F_C, max_F_C) | 753 fix_map(tmp, core_map, threshold_P_V, threshold_F_C, max_F_C) |
| 754 file_svg = 'result/' + i + '_vs_' + j + ' (SVG Map).svg' | 754 file_svg = 'result/' + i + '_vs_' + j + ' (SVG Map).svg' |
| 755 with open(file_svg, 'wb') as new_map: | 755 with open(file_svg, 'wb') as new_map: |
| 756 new_map.write(ET.tostring(core_map)) | 756 new_map.write(ET.tostring(core_map)) |
| 757 | 757 |