library(gsa24v3manifest)
#> Ready to load 'manifest', please have patience when doing so...The main object in this package is the function load_manifest that loads the manifest (it may take a few moments):
manifest <- load_manifest()
head(manifest)
#> Name IlmnID RsID Chr MapInfo
#> 1: 1:103380393 1:103380393-0_B_R_2346041316 rs577266494 1 102914837
#> 2: 1:109439680 1:109439680-0_T_F_2348625138 rs755970517 1 108897058
#> 3: 1:110198788 ilmnseq_1:110198788-3_B_F_2599938692 rs59319063 1 109656166
#> 4: 1:110201112 ilmnseq_1:110201112-3_B_R_2599950325 rs142834408 1 109658490
#> 5: 1:110201667 ilmnseq_1:110201667-3_B_F_2599938696 rs114328674 1 109659045
#> 6: 1:110202904 ilmnseq_1:110202904-3_T_R_2599938699 rs145829673 1 109660282
#> AddressA_ID AddressB_ID GenomeBuild SNP IlmnStrand SourceStrand
#> 1: 9663149 NA 38 [T/C] BOT TOP
#> 2: 26641362 NA 38 [A/G] TOP TOP
#> 3: 5682188 NA 38 [T/C] BOT BOT
#> 4: 21701591 2642179 38 [G/C] BOT TOP
#> 5: 79803181 NA 38 [T/C] BOT BOT
#> 6: 89737952 NA 38 [A/G] TOP BOT
#> TopGenomicSeqSBE TopGenomicSeqSBE_Left TopGenomicSeqSBE_Right BeadSetID
#> 1: A[A/G]A A A 1895
#> 2: T[A/G]T T T 1964
#> 3: C[A/G]C C C 2061
#> 4: T[C/G]C T C 1964
#> 5: C[A/G]G C G 1964
#> 6: C[A/G]A C A 1964
#> Exp_Clusters RefStrand ProbeType SNPType Exclude MappingComment
#> 1: 3 - II UNAMB FALSE
#> 2: 3 + II UNAMB FALSE
#> 3: 3 + II UNAMB FALSE
#> 4: 3 - I AMB FALSE
#> 5: 3 + II UNAMB FALSE
#> 6: 3 - II UNAMB FALSE
table(manifest$Chr)
#>
#> 0 1 10 11 12 13 14 15 16 17 18 19 2
#> 210 49452 30870 31741 29508 24328 19725 20364 21072 21210 17499 16444 53316
#> 20 21 22 3 4 5 6 7 8 9 MT X XY
#> 14591 8445 9748 42716 38061 36714 42938 34285 31106 26359 1138 27171 878
#> Y
#> 4138
table(manifest$ProbeType)
#>
#> I II
#> 14657 639370