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User: sarah.williams1

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Posts by sarah.williams1

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Comment: C: HDF5Array Single cell experiment objects - can on-disk files change?
... Thanks for clarifying. Good to be sure :) ...
written 4 days ago by sarah.williams120
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HDF5Array Single cell experiment objects - can on-disk files change?
... Basic question about working with HDF5-backed / sparse/ delayedArray SingleCellExperiment objects: Because its stored on disk, does that mean operations on a large dataset could get realised live on the currently loaded data on disk? ie. if I do the following, sce <- loadHDF5SummarizedExpe ...
hdf5array written 7 days ago by sarah.williams120 • updated 6 days ago by Aaron Lun22k
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No gene hits in cameraPR - due to bug dropping statistic names?
... Hi, I have been using the pre-ranked cameraPR function for a custom ranking of genes for camera.  If I use the function as is, I get no hit genes at all: cameraPR(statistic=the_stat,index=Hs.c5.gene_name)[1:3,] NGenes Direction PValue FDR GO_REGULATI ...
limma camera written 17 months ago by sarah.williams120 • updated 17 months ago by Gordon Smyth36k
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VariantAnnotation error with readVcf after genotypeToSnpMatrix
... Hi, Struck an issue with running 'readVcf' function (in VariantAnnotation package) if it is called after genotypeToSnpMatrix(), or importing snpStats package. It works fine if called first. Simple workaround is to import SNPstats before VariantAnnotation - but might be worth a bug report? Examples ...
variantannotation written 2.3 years ago by sarah.williams120

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