Import Mouse Genome Informatics (MGI) metadata
Examples
object <- Mgi()
#> → Importing MGI metadata.
#> → Caching URL at <https://www.informatics.jax.org/downloads/reports/MGI_Gene_Model_Coord.rpt> into /private/var/folders/pt/1g5629f1699dfjwdfh32q50m0000gn/T/koopa-r-docs-build-l3dklp41/home/.cache/R/AcidGenomes/BiocFileCache.
#>
#> → Importing /private/var/folders/pt/1g5629f1699dfjwdfh32q50m0000gn/T/koopa-r-docs-build-l3dklp41/home/.cache/R/AcidGenomes/BiocFileCache/a365464d46c8_MGI_Gene_Model_Coord.rpt using base::`readLines()`.
#> → Importing text connection with base::`read.table()`.
print(object)
#> Mgi with 124653 rows and 15 columns
#> ensemblGeneChromosome ensemblGeneEnd ensemblGeneId
#> <character> <integer> <character>
#> 87853 2 154892932 ENSMUSG00000027596
#> 87854 6 128503683 ENSMUSG00000030359
#> 87859 2 31694239 ENSMUSG00000026842
#> 87860 1 156477138 ENSMUSG00000026596
#> 87862 7 33722306 ENSMUSG00000066583
#> ... ... ... ...
#> 7834356 2 136077082 ENSMUSG00000127027
#> 7834358 2 164345988 ENSMUSG00000137503
#> 7834360 2 109963249 ENSMUSG00000138928
#> 7834362 2 52837904 ENSMUSG00000140534
#> 7967693 NA NA NA
#> ensemblGeneStart ensemblGeneStrand genomeBuild markerName
#> <integer> <factor> <character> <character>
#> 87853 154633322 + GRCm39 nonagouti
#> 87854 128460530 - GRCm39 PZP alpha-2-macroglo..
#> 87859 31578388 + GRCm39 Abl proto-oncogene 1..
#> 87860 156386356 + GRCm39 ABL proto-oncogene 2..
#> 87862 33720908 + GRCm39 secretoglobin, famil..
#> ... ... ... ... ...
#> 7834356 136076008 - GRCm39 predicted gene, 75819
#> 7834358 164339005 - GRCm39 predicted gene, 75820
#> 7834360 109876392 + GRCm39 predicted gene, 75821
#> 7834362 52821585 + GRCm39 predicted gene, 75822
#> 7967693 NA NA GRCm39 regulatory region 50..
#> markerSymbol markerType mgiAccessionId ncbiGeneChromosome
#> <character> <character> <integer> <character>
#> 87853 a Gene 87853 2
#> 87854 Pzp2 Gene 87854 6
#> 87859 Abl1 Gene 87859 2
#> 87860 Abl2 Gene 87860 1
#> 87862 Scgb1b27 Gene 87862 7
#> ... ... ... ... ...
#> 7834356 Gm75819 Gene 7834356 NA
#> 7834358 Gm75820 Gene 7834358 NA
#> 7834360 Gm75821 Gene 7834360 NA
#> 7834362 Gm75822 Gene 7834362 NA
#> 7967693 Rr505561 Other Genome Feature 7967693 15
#> ncbiGeneEnd ncbiGeneId ncbiGeneStart ncbiGeneStrand
#> <integer> <integer> <integer> <factor>
#> 87853 154892932 50518 154792519 +
#> 87854 128503683 11287 128460530 -
#> 87859 31697105 11350 31578256 +
#> 87860 156477189 11352 156386160 +
#> 87862 33722306 11354 33720906 +
#> ... ... ... ... ...
#> 7834356 NA NA NA NA
#> 7834358 NA NA NA NA
#> 7834360 NA NA NA NA
#> 7834362 NA NA NA NA
#> 7967693 79097526 107963957 79096944 +