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My alabaster.matrix package has a DelayedMask class that replaces all instances of a placeholder with an NA value during extract_*_array() calls. Essentially, it is equivalent to: library(DelayedArray) ...
  • LTLA
  • Opened 
    28 days ago
  • #122

Another side-effect from #119 - unname() doesn t restore the matrixClass of my ReloadedArray: library(alabaster.base) arr - array(rpois(260, 10), c(26, 10)) dir - tempfile() saveObject(arr, dir) obj ...
  • LTLA
  • 3
  • Opened 
    on Dec 13, 2024
  • #121

Curently path( DelayedArray ) just calls path( DelayedOp ), which effectively tries to call path(seed(object)). Could a dedicated path,DelayedArray-method be added that calls path(object@seed)? As per ...
  • LTLA
  • 3
  • Opened 
    on Nov 30, 2024
  • #120

For custom seeds, I would like to be able to make showtree() more informative. For example, I might have a seed class where one or more of the slots is another DelayedArray, and I would like to show the ...
  • LTLA
  • 6
  • Opened 
    on Nov 20, 2024
  • #119

I tried to install package geneLenDataBase to run ChAMP. I kept getting message Error in loadNamespace(i, c(lib.loc, .libPaths()), versionCheck = vI[[i]]) : namespace DelayedArray 0.24.0 is being loaded, ...
  • fhao2
  • 6
  • Opened 
    on Aug 4, 2024
  • #118

I actually don t know why I come across this problem when I test fastMNN. I hope I could find out why this error happen, and code is as follows. zilionis - ZilionisLungData() zilionis - zilionis[, colSums(assay(zilionis)) ...
  • tomyputw
  • 3
  • Opened 
    on Jul 8, 2024
  • #117

When x is an HDF5Matrix, but I haven t attached any BioC packages, I get: cbind(x, x) Error: unable to find an inherited method for function ‘bindCOLS’ for signature ‘x = HDF5Matrix ’ Seemingly, this ...
  • multimeric
  • 3
  • Opened 
    on May 31, 2024
  • #116

PeteHaitch/DelayedMatrixStats@9048f3e7a24035f3526a2ac0455598138e0c8480 causes https://github.com/Bioconductor/DelayedArray/blob/700cfdc38e0f97a67942963c1555d0fd83a7bc41/R/DelayedArray-utils.R#L868 to ...
  • LTLA
  • 6
  • Opened 
    on Apr 17, 2024
  • #115

a = arrow::Array$create(c( foo )) as.vector(a) # works fine [1] foo suppressMessages(library(DelayedArray)) as.vector(a) Error in extract_array(x, index) : the first argument to extract_array() ...
  • Wainberg
  • 1
  • Opened 
    on Mar 2, 2024
  • #114

When multiplying a DelayedMatrix with a ordinary matrix, the dimnames changes when the output has no columns: library(DelayedArray) X - DelayedArray(matrix(runif(100), 20, 5)) y - cbind(runif(5), runif(5)) ...
  • LTLA
  • 2
  • Opened 
    on Mar 1, 2024
  • #113
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