Enrichment bar chart

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choosefile *  example












Parameter modification


Task switching


Global modification


Color modification


Graphics download


1. Functions

Draw enrichment analysis bar chart by using enrichment analysis results.

2. Scope of application

The enrichment analysis results are applicable to KEGG, GO, DO and reactome databases.

3. Input

(1) format description of uploaded file: data must be separated by tab characters. you can choose to open it in Excel and save it as a. txt file separated by tab key.

There are three types of input files

Type1:

1. pathway name /term name/gene id;

2. The number of target genes/differential genes enriched in the term/ pathway;

3. P value (or Q value) of enrichment analysis;

4. (Differential genes/target genes) The percentage of genes belonging to this pathway /term in the total differential/target genes;

5. The ratio of foreground genes (differential genes/target genes enriched in this pathway /term) to background genes (all genes enriched in this pathway /term).

The table is shown in the following table:

id

num

qvalue

per

ratio

DOID:0050687 cell type cancer

499

4.38E-09

29.685

0.407

DOID:14566 disease of cellular proliferation

1243

6.98E-07

73.944

0.352

DOID:0050686 organ system cancer

845

6.98E-07

50.268

0.369

DOID:162 cancer

1229

1.10E-06

73.111

0.352

DOID:17 musculoskeletal system disease

360

1.20E-06

21.416

0.41

DOID:3996 urinary system cancer

180

2.81E-06

10.708

0.457

DOID:1287 cardiovascular system disease

408

5.18E-06

24.271

0.398

DOID:305 carcinoma

281

1.12E-05

16.716

0.417

DOID:1749 squamous cell carcinoma

237

1.53E-05

14.099

0.426

DOID:1909 melanoma

235

3.38E-05

13.98

0.423


Type2


Column 1: KEGG pathway name (class D classification)

Column 2: the number of genes annotated to the KEGG pathway in the target gene set

 Column 3: the number of genes annotated to the KEGG pathway in the background gene set

Column 4: P-value

 Column 5: Q-value

Column 6: KEGG channel number, i.e. ko number

Column 7: protein ID annotated into KEGG pathway

Column 8: k number of protein annotated in KEGG pathway



Type3

KEGG data table

GO data table

DO data table

REACTOME data table


4. Parameter selection

1) input file type: type1 files have only 5 columns, type2 files have more information, and type3 files are files of gideo process;

2) Rows used for drawing: select the first N rows of the table for drawing, and the data of the first 20 rows are used for drawing by default;

3) Parameter selection: selecting P-value or Q-value will affect the final graphic result;

Type: enrichment analysis type, GO, KO, DO, Reactome.

5. Parameter adjustment

1) graphic title: set or modify the title of the graphic;

2)X/Y axis title: set or modify the title of X/Y axis;

3) Transparency: set the transparency of the bar graph column;

4) Graph type: choose horizontal or vertical display column chart;

5) Numerical value: whether to display numerical value;

6) Coordinate axis adaptation: according to the length of the column, automatically change the abscissa range.

7) Color modification: change the graphic color matching and provide three classic color matching.

6. Output

The program will output bar charts according to the selected parameters, and users can adjust the parameters according to their personal needs, and provide files in SVG and PNG formats for downloading.




Results Display      (Click " task ID" to view different analysis results)