在循环中使用RefManageR从PMID获取PubMed信息

我正在尝试使用RefManageR和PubMed ID（PMID）从PubMed检索引文信息

我选择RefManageR是因为以data.frame格式粘贴输出非常容易。对我来说，仍然很难理解和单独使用PubMedAPI

我能够编写使用“PMID字符串”作为输入以获取数据的代码：

require(RCurl)
urli <- getURL("https://gist.githubusercontent.com/aurora-mareviv/3840512f6777d5293218/raw/dfd6b76ceb22c52aa073fc05211dcea986406914/pmids.csv", ssl.verifypeer = FALSE)
pmids <- read.csv(textConnection(urli))
head(pmids)
index10 <- pmids$pmId[1:10]
indice10 <- paste(pmids$pmId[1:10], collapse=" ")

# install.packages("RefManageR")
library(RefManageR)
auth.pm10 <- ReadPubMed(indice10, database = "PubMed", mindate = 1950)
auth.pm10d <- data.frame(auth.pm10)
View(auth.pm10)

它给出以下错误：

错误：内部服务器错误

但是，如果我插入

指示符10

（字符串）而不是

索引10

（向量），它可以工作：

cites <- extract.pub(indice10, dbase="PubMed")
View(cites)

---

cites
ReadPubMEd
每个函数调用只接受一个pmid或查询。尝试：

lapply(pmids[1:3], ReadPubMed, database = "PubMed", mindate = 1950)

给予

您可以将
BibEntry
类的元素放入data.frame中，并很好地设置创作格式

lapply(pmids[1:3], function(x){
 tmp <- unlist(ReadPubMed(x, database = "PubMed", mindate = 1950))
 tmp <- lapply(tmp, function(z) if(is(z, "person")) paste0(z, collapse = ",") else z)
 data.frame(tmp, stringsAsFactors = FALSE)
})

lappy（pmids[1:3]，函数（x）{
tmp谢谢，我没有想到apply！但是，我一直在尝试修改您的代码，以获得可以强制转换为data.frame的内容。例如：
adata好的，
ReadPubMed
返回的是类
BibEntry
，实际上是大约13个元素的列表。因此，您可以将这些元素中的每一个都设置为列在data.frame中。据我所知，您不能将BibEntry类对象输出到data.frame中。我将编辑上面的答案
[[1]]
[1] P. M. Zeltzer, B. Bodey, A. Marlin, et al. “Immunophenotype profile of childhood
medulloblastomas and supratentorial primitive neuroectodermal tumors using 16 monoclonal
antibodies”. Eng. In: _Cancer_ 66.2 (1990), pp. 273-83. PMID: 2196109.

[[2]]
[1] L. C. Rome, R. P. Funke and R. M. Alexander. “The influence of temperature on muscle
velocity and sustained performance in swimming carp”. Eng. In: _The Journal of
experimental biology_ 154 (1990), pp. 163-78. PMID: 2277258.

[[3]]
[1] P. Henry. “[Headache, facial neuralgia. Diagnostic orientation and management]”. Fre.
In: _La Revue du praticien_ 40.7 (1990), pp. 677-81. PMID: 2326596.

lapply(pmids[1:3], function(x){
 tmp <- unlist(ReadPubMed(x, database = "PubMed", mindate = 1950))
 tmp <- lapply(tmp, function(z) if(is(z, "person")) paste0(z, collapse = ",") else z)
 data.frame(tmp, stringsAsFactors = FALSE)
})

                                                                                                                                    title
1 Immunophenotype profile of childhood medulloblastomas and supratentorial primitive neuroectodermal tumors using 16 monoclonal antibodies
2                                               The influence of temperature on muscle velocity and sustained performance in swimming carp
3                                                                      [Headache, facial neuralgia. Diagnostic orientation and management]
                                   author year                             journal volume number  pages  eprint language eprinttype bibtype
1 P M Zeltzer,B Bodey,A Marlin,J Kemshead 1990                              Cancer     66      2 273-83 2196109      eng     pubmed Article
2        L C Rome,R P Funke,R M Alexander 1990 The Journal of experimental biology    154   <NA> 163-78 2277258      eng     pubmed Article
3                                 P Henry 1990               La Revue du praticien     40      7 677-81 2326596      fre     pubmed Article
     dateobj                        key
1 1990-01-01 zeltzer1990immunophenotype
2 1990-01-01          rome1990influence
3 1990-01-01          henry1990headache