User: dario.beraldi

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Posts by dario.beraldi

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Shearwater missing variant
... Hello, I'm using Shearwater in the deepSNV package to detect variants. I'm trying to understand why some variants are missed even they seem quite clear from manual inspection. Here's a VCF record as an example: chr18   5041382 .   A   C   1   PASS    ER=0.142;PI=0.5;AF=0.5;LEN=1    GT:GQ:BF:VF:FW: ...
deepsnv shearwater variant written 8 months ago by dario.beraldi0
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Comment: C: SRAdb: could not find function "sqliteTableFields"
... Done. Thanks a lot that fixed it! ...
written 3.8 years ago by dario.beraldi0
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SRAdb: could not find function "sqliteTableFields"
... Hello, I just installed SRAdb. I get the error "could not find function "sqliteTableFields" when executing getSRA. Any idea what's wrong? Many thanks! Dario library(SRAdb) sra_dbname <- 'SRAmetadb.sqlite' sra_con <- dbConnect(dbDriver("SQLite"), sra_dbname) rs <- getSRA (search_t ...
sradb sqlite written 3.8 years ago by dario.beraldi0 • updated 3.8 years ago by Sean Davis21k

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