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Hello, I am using StandR to analyze my GeoMx data. I load my data by running:
library(standR)
library(SpatialExperiment)
library(limma)
library(ExperimentHub)
library(ggplot2)
library(tidyverse)
countFile <- read_tsv("TargetCount.txt") %>% as.data.frame()
sampleAnnoFile <- read_tsv("SampleAnno.txt") %>% as.data.frame()
featureAnnoFile <- read_tsv("featureAnno.txt") %>% as.data.frame()
# include your problematic code here with any corresponding output
# please also include the results of running the following in an R session
sessionInfo( )
Then I import the data into a spatial experiment object by running:
spe <- readGeoMx(countFile, sampleAnnoFile, featureAnnoFile)
But I got this error:
Error in SummarizedExperiment(...) :
the rownames and colnames of the supplied assay(s) must be NULL or identical to those of the SummarizedExperiment object
(or derivative) to construct
I would be very appreciated it if someone could give me an idea of what may have gone wrong. Many thanks!