sptBClstRds: Visualize Somatic Alterations of fresh frozen Spatial...

In limin321/spamut: Visualizing Somatic Alterations of 10X Spatial Transcriptomics Data

Visualize Somatic Alterations of fresh frozen Spatial Transcriptomics Data

Description

Visualize Somatic Alterations of fresh frozen Spatial Transcriptomics Data

Usage

sptBClstRds(files, data1, data2, path)

Arguments

files	a vector of spotIndex file, each barcode one txt file
data1	filtered_feature_bc.csv generated by spaceranger
data2	Graph-Based csv file exported from 10X Loupe Browser when open Loupe.Loupe
path	Path to the tissue_positions_list.csv under spatial/ folder

Value

A list of two data frame

Examples

## Not run: 
files <- list.files(path = system.file("extdata/spotIndex",package = "spamut"),
    pattern = ".txt", full.names = TRUE, recursive = FALSE)
data1 <- read.csv(system.file("extdata/","filtered_feature_bc.csv",
    package = "spamut"), header = TRUE)
data2 <- read.csv(system.file("extdata/","Graph-Based.csv", package = "spamut"), header = TRUE)
path <- system.file("extdata/","tissue_positions_list.csv", package = "spamut"
df <- sptBClstRds(files=files,data1=data1, data2=data2, path=path)

## End(Not run)

limin321/spamut documentation built on May 13, 2022, 12:50 a.m.