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titipata
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pubmed_parser
:clipboard: A Python Parser for PubMed Open-Access XML Subset and MEDLINE XML Dataset
http://titipata.github.io/pubmed_parser/
MIT License
580
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166
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Fix online parser to parse given PMID
#56
titipata
closed
4 years ago
1
XMLSyntaxError
#55
deakkon
closed
6 years ago
4
shorten installation steps by using pip
#54
bluenex
closed
6 years ago
0
ImportError: libicui18n.so.56: cannot open shared object file: No such file or directory
#53
deakkon
closed
4 years ago
3
README: explicitly change into the source directory
#52
vbatts
closed
7 years ago
0
Abstract partically extracted
#51
deakkon
closed
4 years ago
7
feature request: MeSH IDs
#50
pseudomonas
closed
6 years ago
4
"cannot use absolute path on element" when passing xml as string instead of fileobject
#49
rajasankar
closed
7 years ago
1
python-2.7 import error: No module named 'request'
#48
uludag
closed
7 years ago
4
Possible error while parsing structured abstracts.
#47
RudrakshTuwani
closed
7 years ago
23
problem with parse paragraph function
#46
rbf22
closed
7 years ago
8
AttributeError: 'NoneType' object has no attribute 'text' while using parse_xml_web
#45
deakkon
closed
7 years ago
1
Error while reading Medline gz file from path
#44
deakkon
closed
4 years ago
3
"can only parse strings" while reading PMC nxml
#43
deakkon
closed
4 years ago
6
Return table in format that can convert to multilayer dataframe
#42
titipata
opened
7 years ago
0
Problem during parsing medline17m1086 file
#41
schnobi1990
closed
4 years ago
4
Parsers cannot read the xml file.
#40
grabear
closed
7 years ago
3
Problem with parsing MEDLINE baseline 2017 xml files
#39
chengkun-wu
closed
4 years ago
7
Parse more information from MEDLINE XML file
#38
titipata
closed
7 years ago
1
PMID to PMC API from Medline cannot convert all provided PMID
#37
titipata
opened
7 years ago
6
paragraphs with no references not included by parse_pubmed_paragraph
#36
uludag
closed
7 years ago
4
Adding Web of Science (WoS) parser
#35
titipata
closed
7 years ago
1
Use urllib library instead of requests
#34
titipata
closed
8 years ago
1
Problem in list path function: list_xml_path()
#33
RengarAndKhz
closed
8 years ago
2
Add function to parse table from Pubmed OA XML
#32
titipata
closed
8 years ago
1
Unresolved references to 'join' in pubmed_oa_parser
#31
TariqAHassan
closed
8 years ago
3
Add Ability to Harvest all PubDate Information
#30
TariqAHassan
closed
8 years ago
1
Update script to download whole Pubmed OA and MEDLINE dataset
#29
titipata
closed
4 years ago
3
Pubmed OA parser gives some error when parsing `subject`
#28
titipata
closed
8 years ago
1
Added `requests` to install requirements
#27
tcyb
closed
8 years ago
1
Added function for outgoing citations from web
#26
tcyb
closed
8 years ago
2
Return PMCID when parsing Medline XML files
#25
daniel-acuna
closed
8 years ago
4
Output type in Pubmed OA is lxml.etree._ElementUnicodeResult
#24
titipata
closed
8 years ago
4
pretty print xml does not print out format xml
#23
titipata
closed
8 years ago
1
Remove extract space that appear when parsing abstract text
#22
titipata
closed
8 years ago
2
fixed title generation - on encountering tags nested in the tag text,…
#21
H-Plus-Time
closed
8 years ago
2
Clean code and update function's comments
#20
titipata
closed
8 years ago
1
Parallelize MEDLINE parser
#19
titipata
closed
8 years ago
3
Extract GrantID and related basic information
#18
titipata
closed
8 years ago
0
Processing deleted Medline "citations" in NLM XML records
#17
daniel-acuna
closed
8 years ago
6
Parse citations from website
#16
titipata
closed
8 years ago
0
Bug in parse reference function
#15
titipata
closed
8 years ago
0
Merge web parser function to the repository
#14
titipata
closed
8 years ago
1
Create function to caption figure caption and image link
#13
titipata
closed
8 years ago
3
Create function to grab paragraph and reference within the paragraph
#12
titipata
closed
8 years ago
1
Create function to parse reference list
#11
titipata
closed
8 years ago
1
Move include path option to parse_pubmed_xml function directly
#10
titipata
closed
8 years ago
0
Parsing abstract section
#9
titipata
closed
8 years ago
7
Return a new format of authors and affiliation
#8
titipata
closed
8 years ago
0
Add a Gitter chat badge to README.md
#7
gitter-badger
closed
9 years ago
0
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