gset = getGenomicRatioSetFromGEO('GSE75537')
#> Found 1 file(s)
#> GSE75537_series_matrix.txt.gz
#> Using locally cached version: C:\Users\15387\AppData\Local\Temp\Rtmp4SZa9K/GSE75537_series_matrix.txt.gz
#> Parsed with column specification:
#> cols(
#> .default = col_double(),
#> ID_REF = col_character()
#> )
#> See spec(...) for full column specifications.
#> |=================================================================================================================| 100% 256 MB
#> Using locally cached version of GPL16304 found here:
#> C:\Users\15387\AppData\Local\Temp\Rtmp4SZa9K/GPL16304.soft
#> Warning: 38 parsing failures.
#> row col expected actual file
#> 18000 Closest_TSS no trailing characters ;59854523 literal data
#> 18000 Closest_TSS_1 no trailing characters ;59854524 literal data
#> 23807 Closest_TSS no trailing characters ;838621 literal data
#> 23807 Closest_TSS_1 no trailing characters ;838622 literal data
#> 54524 Closest_TSS no trailing characters ;72977984 literal data
#> ..... ............. ...................... ......... ............
#> See problems(...) for more details.
#>
#> Error in getGenomicRatioSetFromGEO("GSE75537") :
#> No rowname matches. 'rownames' need to match IlluminaHumanMethylation450k probe names.
#> In addition: Warning message:
#> In getGenomicRatioSetFromGEO("GSE75537") :
#> GPL16304 is not the platform ID associated with IlluminaHumanMethylation450k. Should be GPL13534.
But GPL16304 is decribed as Illumina HumanMethylation450 BeadChip [UBC enhanced annotation v1.0], I am confused to the error and the annotation package.
I am using R version 3.5.1 and minfi 1.28.0
But GPL16304 is decribed as
Illumina HumanMethylation450 BeadChip [UBC enhanced annotation v1.0], I am confused to the error and the annotation package.