Function:
Plotting GO (gene ontology) annotations (the second level) in three GO ontologies from one or more groups of data.
Input:
input a GO annotation file of all groups and a grouping file. In the GO annotation file, the first column presents gene IDs and the rest columns present GO IDs. In the grouping file, the first column is gene IDs, and the second column is group names.
Unigene0000004 GO:0002376 GO:0005126 Unigene0000005 GO:0048469 GO:0046914 GO:0042127 GO:0005515 GO:0000982 GO:0006357 GO:0043231 GO:0038023 GO:0009755 GO:0022602 GO:0003677 GO:0030518 Unigene0000009 GO:0005198 Unigene0000010 GO:0005198 Unigene0000016 GO:0003676 GO:0016479 GO:0043232 GO:0097191 GO:0009895 Unigene0000027 GO:0016842 GO:0043231 GO:0043234 GO:0043409 GO:0017016 GO:0000226 GO:0044444 GO:0065003 GO:0097485 Unigene0000028 GO:0043231 GO:0043234 GO:0043409 GO:0017016 GO:0000226 GO:0044444 GO:0065003 GO:0097485 Unigene0000034 GO:0010508 GO:0046914 GO:0060089 GO:0010629 GO:0051091 GO:0044432 GO:0043161 GO:0016567 GO:0031090 GO:0008219 GO:0010212 GO:0043122 GO:0006952 GO:0019787 GO:1902186 Unigene0000040 GO:0019842 GO:0016829 GO:0046872 GO:0009062 GO:0042579 GO:0006461 GO:0005515 Unigene0000043 GO:0006810 GO:0031224 Unigene0000051 GO:0043169 GO:0017111 . . . . .
Parameters :
① GO Database: We support 4 versions of GO databases including:
② Chart type: There are two options: dodge histogram and stack histogram. Dodge means each group is shown side by side. Stack means each group of data is shown in a stack chart.
③ Percentage on Y-axis: Percentage of genes with a certain GO annotation. You can choose whether or not to display the percentage on the right y-axis.
④ Log10 transformation of y-axis: You can scale the data using log10 transformation if gene numbers of different GO terms vary widely. For stack histogram, log10 transformation is not allowed.
⑤ Color: Define the color of each group (two groups or more) or each GO ontology (only one group).
⑥ Background pattern: There are three patterns for the background. Range: the background is multicolor. Bar: the background is line. Null: no background.
Output:
① osgo.png: a scalar figure of second level GO annotation histogram.
② All GO level2 bar. svg: a vector figure of second level GO annotation histogram.
③ All Go level2. stat. xls: annotation information table.