Closed liuyongcds closed 5 years ago
Format your message properly, it's really hard to figure out what's going on here.
But the problem is probably because you supply an approximation
argument to fastMNN
. No such named argument exists, so it just ends up being treated as a batch, which is obviously silly.
Format your message properly, it's really hard to figure out what's going on here.
But the problem is probably because you supply an
approximation
argument tofastMNN
. No such named argument exists, so it just ends up being treated as a batch, which is obviously silly. Hi Aaron, I have changed the approximation to approximate. Now, it works. Many thanks. Best, Yong
Hi, Aaron When I run the fastMNN on my sampls( which from 10x), it keep complain the error "number of rows is not the same across batches". May you help me with that? Best, Yong
sessionInfo() R version 3.5.1 (2018-07-02) Platform: x86_64-w64-mingw32/x64 (64-bit) Running under: Windows >= 8 x64 (build 9200)
Matrix products: default
locale: [1] LC_COLLATE=English_United States.1252 LC_CTYPE=English_United States.1252 LC_MONETARY=English_United States.1252 [4] LC_NUMERIC=C LC_TIME=English_United States.1252
attached base packages: [1] parallel stats4 stats graphics grDevices utils datasets methods base
other attached packages: [1] DropletUtils_1.2.1 scater_1.10.0 ggplot2_3.1.0 scran_1.10.1 SingleCellExperiment_1.4.0 [6] SummarizedExperiment_1.12.0 DelayedArray_0.8.0 matrixStats_0.54.0 Biobase_2.42.0 GenomicRanges_1.34.0
[11] GenomeInfoDb_1.18.0 IRanges_2.16.0 S4Vectors_0.20.0 BiocGenerics_0.28.0 BiocParallel_1.16.0
loaded via a namespace (and not attached): [1] Rcpp_1.0.0 locfit_1.5-9.1 lattice_0.20-35 digest_0.6.18 assertthat_0.2.0
[6] R6_2.3.0 plyr_1.8.4 dynamicTreeCut_1.63-1 pillar_1.3.0 zlibbioc_1.28.0
[11] rlang_0.3.0.1 lazyeval_0.2.1 irlba_2.3.2 rstudioapi_0.8 Matrix_1.2-14
[16] labeling_0.3 BiocNeighbors_1.0.0 statmod_1.4.30 Rtsne_0.13 stringr_1.3.1
[21] igraph_1.2.2 RCurl_1.95-4.11 munsell_0.5.0 HDF5Array_1.10.0 compiler_3.5.1
[26] vipor_0.4.5 pkgconfig_2.0.2 ggbeeswarm_0.6.0 tidyselect_0.2.5 tibble_1.4.2
[31] gridExtra_2.3 GenomeInfoDbData_1.2.0 edgeR_3.24.0 viridisLite_0.3.0 crayon_1.3.4
[36] dplyr_0.7.8 withr_2.1.2 bitops_1.0-6 grid_3.5.1 gtable_0.2.0
[41] magrittr_1.5 scales_1.0.0 stringi_1.2.4 XVector_0.22.0 reshape2_1.4.3
[46] viridis_0.5.1 bindrcpp_0.2.2 limma_3.38.2 DelayedMatrixStats_1.4.0 cowplot_0.9.3
[51] Rhdf5lib_1.4.0 tools_3.5.1 glue_1.3.0 beeswarm_0.2.3 purrr_0.2.5
[56] colorspace_1.3-2 rhdf5_2.26.0 bindr_0.1.1