4e1f462b2f1a3e877ee4041550b0fd276bcaa4a2 max Tue Nov 5 16:24:55 2019 +0100 renaming chromFixer to chromToUcsc, refs #24407 diff --git src/utils/chromToUcsc/tests/mm10.chromAlias.tsv src/utils/chromToUcsc/tests/mm10.chromAlias.tsv new file mode 100644 index 0000000..b7e97c6 --- /dev/null +++ src/utils/chromToUcsc/tests/mm10.chromAlias.tsv @@ -0,0 +1,154 @@ +NC_000067.6 chr1 refseq +CM000994.2 chr1 genbank +1 chr1 ensembl +NC_000076.6 chr10 refseq +CM001003.2 chr10 genbank +10 chr10 ensembl +NC_000077.6 chr11 refseq +CM001004.2 chr11 genbank +11 chr11 ensembl +NC_000078.6 chr12 refseq +CM001005.2 chr12 genbank +12 chr12 ensembl +NC_000079.6 chr13 refseq +CM001006.2 chr13 genbank +13 chr13 ensembl +NC_000080.6 chr14 refseq +CM001007.2 chr14 genbank +14 chr14 ensembl +NC_000081.6 chr15 refseq +CM001008.2 chr15 genbank +15 chr15 ensembl +NC_000082.6 chr16 refseq +CM001009.2 chr16 genbank +16 chr16 ensembl +NC_000083.6 chr17 refseq +CM001010.2 chr17 genbank +17 chr17 ensembl +NC_000084.6 chr18 refseq +CM001011.2 chr18 genbank +18 chr18 ensembl +NC_000085.6 chr19 refseq +CM001012.2 chr19 genbank +19 chr19 ensembl +NT_166280.1 chr1_GL456210_random refseq +GL456210.1 chr1_GL456210_random genbank,ensembl +NT_166281.1 chr1_GL456211_random refseq +GL456211.1 chr1_GL456211_random genbank,ensembl +NT_166282.1 chr1_GL456212_random refseq +GL456212.1 chr1_GL456212_random genbank,ensembl +NT_166283.1 chr1_GL456213_random refseq +GL456213.1 chr1_GL456213_random genbank,ensembl +NT_162750.1 chr1_GL456221_random refseq +GL456221.1 chr1_GL456221_random genbank,ensembl +NC_000068.7 chr2 refseq +CM000995.2 chr2 genbank +2 chr2 ensembl +NC_000069.6 chr3 refseq +CM000996.2 chr3 genbank +3 chr3 ensembl +NC_000070.6 chr4 refseq +CM000997.2 chr4 genbank +4 chr4 ensembl +NT_166291.1 chr4_GL456216_random refseq +GL456216.1 chr4_GL456216_random genbank,ensembl +NT_166434.1 chr4_GL456350_random refseq +GL456350.1 chr4_GL456350_random genbank,ensembl +NT_187052.1 chr4_JH584292_random refseq +JH584292.1 chr4_JH584292_random genbank,ensembl +NT_187053.1 chr4_JH584293_random refseq +JH584293.1 chr4_JH584293_random genbank,ensembl +NT_187054.1 chr4_JH584294_random refseq +JH584294.1 chr4_JH584294_random genbank,ensembl +NT_187055.1 chr4_JH584295_random refseq +JH584295.1 chr4_JH584295_random genbank,ensembl +NC_000071.6 chr5 refseq +CM000998.2 chr5 genbank +5 chr5 ensembl +NT_166438.1 chr5_GL456354_random refseq +GL456354.1 chr5_GL456354_random genbank,ensembl +NT_187056.1 chr5_JH584296_random refseq +JH584296.1 chr5_JH584296_random genbank,ensembl +NT_187057.1 chr5_JH584297_random refseq +JH584297.1 chr5_JH584297_random genbank,ensembl +NT_187058.1 chr5_JH584298_random refseq +JH584298.1 chr5_JH584298_random genbank,ensembl +NT_187059.1 chr5_JH584299_random refseq +JH584299.1 chr5_JH584299_random genbank,ensembl +NC_000072.6 chr6 refseq +CM000999.2 chr6 genbank +6 chr6 ensembl +NC_000073.6 chr7 refseq +CM001000.2 chr7 genbank +7 chr7 ensembl +NT_166307.1 chr7_GL456219_random refseq +GL456219.1 chr7_GL456219_random genbank,ensembl +NC_000074.6 chr8 refseq +CM001001.2 chr8 genbank +8 chr8 ensembl +NC_000075.6 chr9 refseq +CM001002.2 chr9 genbank +9 chr9 ensembl +NC_005089.1 chrM refseq +AY172335.1 chrM genbank +MT chrM ensembl +NT_166338.1 chrUn_GL456239 refseq +GL456239.1 chrUn_GL456239 genbank,ensembl +NT_166443.1 chrUn_GL456359 refseq +GL456359.1 chrUn_GL456359 genbank,ensembl +NT_166444.1 chrUn_GL456360 refseq +GL456360.1 chrUn_GL456360 genbank,ensembl +NT_166450.1 chrUn_GL456366 refseq +GL456366.1 chrUn_GL456366 genbank,ensembl +NT_166451.1 chrUn_GL456367 refseq +GL456367.1 chrUn_GL456367 genbank,ensembl +NT_166452.1 chrUn_GL456368 refseq +GL456368.1 chrUn_GL456368 genbank,ensembl +NT_166454.1 chrUn_GL456370 refseq +GL456370.1 chrUn_GL456370 genbank,ensembl +NT_166456.1 chrUn_GL456372 refseq +GL456372.1 chrUn_GL456372 genbank,ensembl +NT_166462.1 chrUn_GL456378 refseq +GL456378.1 chrUn_GL456378 genbank,ensembl +NT_166463.1 chrUn_GL456379 refseq +GL456379.1 chrUn_GL456379 genbank,ensembl +NT_166465.1 chrUn_GL456381 refseq +GL456381.1 chrUn_GL456381 genbank,ensembl +NT_166466.1 chrUn_GL456382 refseq +GL456382.1 chrUn_GL456382 genbank,ensembl +NT_166467.1 chrUn_GL456383 refseq +GL456383.1 chrUn_GL456383 genbank,ensembl +NT_166469.1 chrUn_GL456385 refseq +GL456385.1 chrUn_GL456385 genbank,ensembl +NT_166471.1 chrUn_GL456387 refseq +GL456387.1 chrUn_GL456387 genbank,ensembl +NT_166473.1 chrUn_GL456389 refseq +GL456389.1 chrUn_GL456389 genbank,ensembl +NT_166474.1 chrUn_GL456390 refseq +GL456390.1 chrUn_GL456390 genbank,ensembl +NT_166476.1 chrUn_GL456392 refseq +GL456392.1 chrUn_GL456392 genbank,ensembl +NT_166477.1 chrUn_GL456393 refseq +GL456393.1 chrUn_GL456393 genbank,ensembl +NT_166478.1 chrUn_GL456394 refseq +GL456394.1 chrUn_GL456394 genbank,ensembl +NT_166480.1 chrUn_GL456396 refseq +GL456396.1 chrUn_GL456396 genbank,ensembl +NT_187064.1 chrUn_JH584304 refseq +JH584304.1 chrUn_JH584304 genbank,ensembl +NC_000086.7 chrX refseq +CM001013.2 chrX genbank +X chrX ensembl +NT_165789.2 chrX_GL456233_random refseq +GL456233.1 chrX_GL456233_random genbank,ensembl +NC_000087.7 chrY refseq +CM001014.2 chrY genbank +Y chrY ensembl +NT_187060.1 chrY_JH584300_random refseq +JH584300.1 chrY_JH584300_random genbank,ensembl +NT_187061.1 chrY_JH584301_random refseq +JH584301.1 chrY_JH584301_random genbank,ensembl +NT_187062.1 chrY_JH584302_random refseq +JH584302.1 chrY_JH584302_random genbank,ensembl +NT_187063.1 chrY_JH584303_random refseq +JH584303.1 chrY_JH584303_random genbank,ensembl