划重点：利用R语言几行代码，快速从pubmed根据keywords搜索数据（不会爬虫也没关系），查看下载数据，整理数据格式，一步到位。
meta分析大家都知道，数据收集和整理是整个过程中非常熬人
的一步，github上不缺的就是大神
，新近发现了一个包pubmedR分享给正在或者将来可能要做mmeta分析的各位瓜客
上菜！
pubmedR包中的示例
输入1：包的安装及调用
install.packages('pubmedR') # 首次使用先安装library(pubmedR) # 调用
第一步：确定检索关键词和其他信息
如下，[Title/Abstract ]中是关键词，示例中是“bibliometric”，如果有多个关键，遵循的是pubmed检索规则，如用&符号隔开。[LA]是目标语言，此处是英文。[PT]文献类型，发表的期刊。[DP]是时间间隔。
query <- "bibliometric*[Title/Abstract] AND english[LA] AND Journal Article[PT] AND 2000:2020[DP]"
第二步：检索文献，可以看看文献总数
如下，需要注意的是api_key这个参数，不指定的话每秒请求3次数据，如果指定的话每秒请求10次数据，如果瓜客们的数据量大，建议指定。那么如何指定呢，需要在NCBI注册一个账号，然后进入账号设置里设置，会自动给出一长串字符串，即该账号的api，然后粘贴在R代码中就好了。
res <- pmQueryTotalCount(query = query, api_key = NULL)# res <- pmQueryTotalCount(query = query, api_key = api_key) res$total_count
第三步：下载数据，并将XML格式转换
如下，如果pmApiRequest这行操作失败，是由于Rstudio的语言环境不是英文导致的，需要运行Sys.setlocale(category = "LC_ALL", locale = "C")这行修改当前的语言环境。
D <- pmApiRequest(query = query, limit = res$total_count, api_key = api_key)D$query_translation# Sys.setlocale(category = "LC_ALL", locale = "C")M <- pmApi2df(D,format = "bibliometrix")
第四步：整理成常规表格，并查看汇总的数据
# install.packages("bibliometrix") 初次使用请先安装library(bibliometrix)M <- convert2df(M, dbsource = "pubmed", format = "api")results <- biblioAnalysis(M)summary(results)
结果如下：
包括文献类型、作者列表、发表年份分布、被引用排名、文献数据库来源、相关的关键词等等
MAIN INFORMATION ABOUT DATA
Timespan 2000 : 2020 Sources (Journals, Books, etc) 1312 Documents 3054 Average years from publication 4.85 Average citations per documents 0 Average citations per year per doc 0 References 1 DOCUMENT TYPES biography 4 case reports 3 comment 8 comparative study 102 editorial 3 evaluation study 19 historical article 84 introductory journal article 3 journal article 2821 letter 3 review 4 DOCUMENT CONTENTS Keywords Plus (ID) 2306 Author's Keywords (DE) 4422 AUTHORS Authors 9262 Author Appearances 13651 Authors of single-authored documents 234 Authors of multi-authored documents 9028 AUTHORS COLLABORATION Single-authored documents 313 Documents per Author 0.33 Authors per Document 3.03 Co-Authors per Documents 4.47 Collaboration Index 3.3
Annual Scientific Production
Year Articles 2000 7 2001 17 2002 10 2003 13 2004 23 2005 38 2006 36 2007 40 2008 58 2009 67 2010 83 2011 114 2012 148 2013 190 2014 193 2015 270 2016 301 2017 340 2018 464 2019 531 2020 111
Annual Percentage Growth Rate 14.81834
Most Productive Authors
Authors Articles Authors Articles Fractionalized1 SWEILEH WM 63 SWEILEH WM 26.402 ZYOUD SH 59 ZYOUD SH 18.743 AL-JABI SW 48 HO YS 15.054 HO YS 37 AL-JABI SW 13.005 WANG Y 28 HUH S 9.336 YOON DY 28 BORNMANN L 9.297 SAWALHA AF 26 SMITH DR 9.008 ZHANG Y 26 E\036ENEL E 8.209 GRONEBERG DA 23 YEUNG AWK 6.7210 BORNMANN L 22 SHAMIM T 6.00
Top manuscripts per citations
Paper TC TCperYear1 TAO Z, 2020, ANN TRANSL MED 0 02 SALMERC3N-MANZANO E, 2020, INT J ENVIRON RES PUBLIC HEALTH 0 03 C\026ZEN C\aD1NAR D0, 2019, INT J NURS PRACT 0 04 KAMBHAMPATI SBS, 2020, J CLIN ORTHOP TRAUMA 0 05 BLAE>UN VOE!NER H, 2020, COMPUT INFORM NURS 0 06 SEVERIN A, 2018, F1000RES 0 07 JUSUE-TORRES I, 2020, CUREUS 0 08 CHARFI R, 2020, TUNIS MED 0 09 JACOB RR, 2020, IMPLEMENT SCI 0 010 GOERLANDT F, 2020, INT J ENVIRON RES PUBLIC HEALTH 0 0
Corresponding Author's Countries
Country Articles Freq SCP MCP MCP_Ratio1 NA 3054 1 3054 0 0
SCP: Single Country Publications
MCP: Multiple Country Publications
Total Citations per Country
Country Total Citations Average Article Citations1 NA 0 0
Most Relevant Sources
Sources Articles1 PLOS ONE 1102 SCIENTOMETRICS 703 WORLD NEUROSURGERY 574 INTERNATIONAL JOURNAL OF ENVIRONMENTAL RESEARCH AND PUBLIC HEALTH 445 ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 426 MEDICINE 337 NEURAL REGENERATION RESEARCH 298 JOURNAL OF THE MEDICAL LIBRARY ASSOCIATION : JMLA 279 BMJ OPEN 2610 PEERJ 26
Most Relevant Keywords
Author Keywords (DE) Articles Keywords-Plus (ID) Articles1 BIBLIOMETRICS 701 BIBLIOMETRICS 16142 BIBLIOMETRIC ANALYSIS 359 HUMANS 15903 BIBLIOMETRIC 189 PERIODICALS AS TOPIC 6214 CITATION ANALYSIS 129 BIOMEDICAL RESEARCH 4995 H INDEX 100 PUBLISHING 4336 CITATIONS 86 JOURNAL IMPACT FACTOR 3297 PUBLICATIONS 86 PUBLICATIONS 2668 SCIENTOMETRICS 75 RESEARCH 2599 CITATION 73 UNITED STATES 22710 WEB OF SCIENCE 69 FEMALE 184
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