User: jmeisig

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jmeisig20
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Germany
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2 years, 7 months ago
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2 years, 8 months ago
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Posts by jmeisig

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Comment: C: Ensembl database query with biomart behaves strangely when using chromosomes as
... Hi Thomas, I fear this does not explain the difference. I explicitly filter these other sources of genes out: all.input <- filter(all.input,chromosome_name %in% c("X",as.character(1:19))) So both queries in the end contain only genes from the X and 1-19. ...
written 2.7 years ago by jmeisig20
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Comment: C: Why does biomaRt query show inconsistent behavior with ensembl versions from Mar
... Apparently the problem can be boiled down to a simpler query. The strange thing is that adding one chromosome (19) actually gives you less genes. ensembl.new <- useMart("ENSEMBL_MART_ENSEMBL",host="may2015.archive.ensembl.org") ensemblmmusculus.new = useDataset("mmusculus_gene_ensembl",mart=ens ...
written 2.7 years ago by jmeisig20
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Why does biomaRt query show inconsistent behavior with ensembl versions from March and May
... Hi, I noticed a problem with biomart driven ensembl querys and it seems that the behaviour depends on the ensembl version used. I'm trying to obtain ggallus homologs for mouse genes on all autosomes and the X. With the May 2015 ensembl archive I need to query each chromosome in a loop to prevent mi ...
biomart ensembl written 2.7 years ago by jmeisig20
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Ensembl database query with biomart behaves strangely when using chromosomes as filter values
... Hi, I have come along a strange behaviour of biomaRt ensembl querys. I get different results when I use the filter "chromosome_name" with values X chromosome and all autosomes or when I use values="*" and then filter for the same chromosomes. This only happens with ggallus homolog attributes in the ...
biomart ensembl written 2.7 years ago by jmeisig20 • updated 2.7 years ago by Thomas Maurel730

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