User: roll

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roll0
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Posts by roll

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GENESIS pcrelate() to load gds file and continue where the function broke
... Hi, I was running pc-relate on a very large set. pcrelate() step was running for days  with the option, write.to.gds=TRUE and just before it finished the job was killed. The function ran up to: ... Creating GDS file for PC-Relate Results Computing Relatedness Estimates for Scan Block Pair (11,4). ...
gds genesis pcrrelate written 4 months ago by roll0 • updated 4 months ago by Stephanie M. Gogarten570
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Comment: C: GENESIS: PCAIR: Error in acc(object, NL[cnode]) : unmatched node provided
... Hi Matt, Thanks. I just checked but all genotypes have het calls in my vcf.  ...
written 5 months ago by roll0
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Comment: C: GENESIS: PCAIR: Error in acc(object, NL[cnode]) : unmatched node provided
... Hi Stephanie, I am having a similar problem with the pcair function but it looks like the problem is kinMat$kinship matrix obtained from snpgdsIBDKING() has NaN values. Do you know why this happens? or how to overcome it? ...
written 5 months ago by roll0
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Comment: C: Gviz: BiomartGeneRegionTrack filters=??
... I would like to plot canonical transcripts using BiomartGeneRegionTrack in a certain region. I tried      filters=list(canonical_transcript = TRUE) but it gives me an error. Any suggestions how to fix this? ...
written 3.4 years ago by roll0
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Gviz: BiomartGeneRegionTrack filters for canonical transcripts
... Hi, I would like to plot canonical transcripts using BiomartGeneRegionTrack in a certain region. I tried      filters=list(canonical_transcript = TRUE) but it gives me an error. Any suggestions what is the correct filter name to fix this? Thanks ...
gviz written 3.4 years ago by roll0

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