无法使用“＃”读取文件和空间使用R中的read.table或read.csv [英] Cannot read file with "#" and space using read.table or read.csv in R

问题描述

我有一个文件，其中第一行是标题。标题可以有空格和＃符号（也可能有其他特殊字符）。我试图使用read.csv或read.table读取此文件，但它一直让我犯错：

I have a file where the first row is a header. The header can have spaces and the # symbol (there may be other special characters as well). I am trying to read this file using read.csv or read.table but it keeps throwing me errors:

undefined columns selected 

more columns than column names 

我的制表符分隔的chromFile文件如下所示：

My tab-delimited chromFile file looks like:

Chromosome# Chr chr Size    UCSC NCBI36/hg18    NCBIBuild36 NCBIBuild37
1   Chr1    chr1    247199719   247249719   247249719   249250621
2   Chr2    chr2    242751149   242951149   242951149   243199373

命令：

chromosomes <- read.csv(chromFile, sep="\t",skip =0, header = TRUE,  )

我想首先寻找一种方法来读取文件，而不用替换空格或＃和其他可读符号。

I want to first look for a way to read the file as it as without replacing the space or # with some other readable symbol.

推荐答案

从文档（？read.csv ）：

comment.char 字符：a cha包含单个字符或空字符串的长度为1的racter向量。使用完全关闭注释的解释。

comment.char character: a character vector of length one containing a single character or an empty string. Use "" to turn off the interpretation of comments altogether.

默认值为 comment.char =＃ 这会给你带来麻烦。在文档之后，你应该使用 comment.char =。

The default is comment.char = "#" which is causing you trouble. Following the documentation, you should use comment.char = "".

标题中的空格是另一个问题正如mrdwab所指出的那样，可以通过设置 check.names = FALSE 来解决。

Spaces in the header is another issue which, as mrdwab kindly pointed out, can be addressed by setting check.names = FALSE.

chromosomes <- read.csv(chromFile, sep = "\t", skip = 0, header = TRUE,
                        comment.char = "", check.names = FALSE)

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