Description Usage Arguments Value See Also Examples
Imports a TAB-delimited AGS or FGS file.
Checks the format of the given FGS file. Reads in unique gene/protein IDs from the given file tbl
so that the created object can be directly submitted to nea.render
and gsea.render
. The function import.gs
will be automatically called from nea.render
if parameters AGS
and/or FGS
of the latter correspond to text files rather than lists.
1 2 |
tbl |
Input TAB-delimited FGS file. |
Lowercase |
render gene/protein IDs lower-case. |
col.gene |
Number of the column with gene/protein IDs in the input file. |
col.set |
Number of the column with set (sample, pathway etc.) IDs in the input file.
Special options:
|
gs.type |
GS type, 'a' produces AGS, 'f' produces FGS. |
header |
assign logical value (TRUE/FALSE) to consider the first line as header from the input file (default:FALSE). |
A list with entry names that correspond AGS/FGS IDs in the input file and gene/protein IDs as elements of each entry.
mutations2ags
, samples2ags
1 2 3 4 | data(can.sig.go)
fpath <- can.sig.go
fgs.list <- import.gs(fpath)
summary(fgs.list)
|
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