Error: $ operator is invalid for atomic vectors
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Ofelia • 0
@90a59c46
Last seen 2.7 years ago
Spain

Hi there,

Hope my question is not too silly, since it is my first day using Bioconductor.

I have been simply trying to import a .bed file like:

import("example.bed", format="bed")

and obtained the error:

Error: $ operator is invalid for atomic vectors

Thanks in advance!


R version 4.0.2 (2020-06-22)
Platform: x86_64-w64-mingw32/x64 (64-bit)
Running under: Windows 10 x64 (build 19041)

Matrix products: default

locale:
[1] LC_COLLATE=Spanish_Spain.1252  LC_CTYPE=Spanish_Spain.1252    LC_MONETARY=Spanish_Spain.1252 LC_NUMERIC=C                  
[5] LC_TIME=Spanish_Spain.1252    

attached base packages:
[1] parallel  stats4    stats     graphics  grDevices utils     datasets  methods   base     

other attached packages:
[1] rtracklayer_1.49.5   GenomicRanges_1.42.0 GenomeInfoDb_1.26.7  IRanges_2.24.1       S4Vectors_0.28.1     BiocGenerics_0.36.1 
[7] BiocManager_1.30.16 

loaded via a namespace (and not attached):
 [1] rstudioapi_0.13             XVector_0.30.0              zlibbioc_1.36.0             GenomicAlignments_1.26.0    BiocParallel_1.24.1        
 [6] lattice_0.20-41             tools_4.0.2                 grid_4.0.2                  SummarizedExperiment_1.20.0 Biobase_2.50.0             
[11] matrixStats_0.59.0          crayon_1.4.1                Matrix_1.2-18               GenomeInfoDbData_1.2.4      bitops_1.0-7               
[16] RCurl_1.98-1.3              DelayedArray_0.16.3         compiler_4.0.2              MatrixGenerics_1.2.1        Biostrings_2.58.0          
[21] Rsamtools_2.6.0             XML_3.99-0.6 
import • 1.3k views
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Don't you think it would be easier for other people to help you if you post the first few lines of your input file?

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Only the correspondant to load the library

library(rtracklayer)

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