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neuroquery
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pubget
Collecting papers from PubMed Central and extracting text, metadata and stereotactic coordinates.
https://neuroquery.github.io/pubget/
MIT License
15
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Preserve texts related to public datsets
#51
leej3
opened
1 day ago
0
[ENH] add table info the documents for annotation
#50
jdkent
opened
1 month ago
1
Allow exporting figure and table captions to labelbuddy
#49
adelavega
opened
1 month ago
1
Preserve text related to public datasets
#48
agtic
closed
1 day ago
2
Re-try downloading ArticleSet XML files with syntax errors (during parsing)
#47
adelavega
opened
1 month ago
4
Update download with new results
#46
adelavega
opened
1 month ago
1
Accept PubMed IDs, and conver to PMCIDS
#45
adelavega
opened
2 months ago
2
Pmid abstracts
#44
koudyk
opened
5 months ago
0
automated report with figures for each of the options chosen
#43
koudyk
opened
5 months ago
1
`fit_neuroquery` raises an error because of deprecated `alpha` argument for NMF in sklearn >= 1.2
#42
RaphaelMeudec
opened
6 months ago
2
[WIP] add extracting table info into a csv
#41
jeromedockes
closed
1 month ago
0
extract table wrap foot
#40
jeromedockes
closed
8 months ago
0
address pandas deprecation warnings
#39
jeromedockes
closed
8 months ago
0
add a `table_info.csv` file in `extractedData`
#38
jeromedockes
closed
1 month ago
3
extract author affiliations into authors.csv
#37
koudyk
closed
10 months ago
2
still need data dir when using alias option?
#36
koudyk
closed
10 months ago
1
investigate ci failure on windows
#35
jeromedockes
closed
1 year ago
1
Add URI link type and tests
#34
adelavega
closed
1 year ago
5
missing links
#33
adelavega
closed
1 year ago
0
add ability to keep words that are linked?
#32
koudyk
opened
1 year ago
2
Suggestion for additional journals
#31
adelavega
closed
10 months ago
6
Searching with spaces
#29
adelavega
closed
1 year ago
5
Extracting table & analysis-level metadata
#28
adelavega
opened
1 year ago
4
Search results mismatch
#27
csiyer
closed
1 year ago
3
extract neurovault collection and image ids
#26
jeromedockes
closed
1 year ago
1
Add NeuroVault extraction
#25
adelavega
closed
1 year ago
5
dump requests and responses for download failures for easier diagnosis
#24
jeromedockes
closed
1 year ago
1
Parse full efetch content
#23
jeromedockes
closed
1 year ago
0
Query alias (symlink)
#22
jeromedockes
closed
1 year ago
0
pubget._entrez Response failed to validate
#21
adelavega
closed
1 year ago
8
pubget.download_pmcids broken
#20
A-Telfer
closed
1 year ago
2
rename PUBGET_API_KEY → NCBI_API_KEY
#19
jeromedockes
closed
1 year ago
1
filter pmcids to keep only open-access articles
#18
jeromedockes
closed
1 year ago
0
Remove labelbuddy pagination
#17
jeromedockes
closed
1 year ago
0
Getting error sklearn.externals.joblib'
#16
AtomicNess123
closed
1 year ago
1
make tfidf extraction optional
#15
jeromedockes
closed
1 year ago
0
when a request fails, wait for 2s and retry (up to 4 times)
#14
jeromedockes
closed
1 year ago
1
rename query dirs query-<md5> to query_<md5>
#13
jeromedockes
closed
1 year ago
1
Allow downloading articles from a PMCID list as an alternative to a PMC query
#12
jeromedockes
closed
1 year ago
1
store extracted tables
#11
jeromedockes
closed
1 year ago
0
add extracting links
#10
jeromedockes
closed
1 year ago
1
Formatting
#9
jeromedockes
closed
1 year ago
0
Enumerated step exit codes
#8
jeromedockes
closed
1 year ago
1
extract neurovault collection id
#7
jdkent
closed
1 year ago
1
Add example plugin & queries
#6
jeromedockes
closed
2 years ago
1
Out of memory error in running pipeline with v.0.0.1
#5
complexbrains
closed
1 year ago
3
Search Term Quoting Issue in the Query Command
#4
complexbrains
closed
1 year ago
8
refactor model data helper
#3
jeromedockes
closed
2 years ago
0
Add fit neurosynth
#2
jeromedockes
closed
2 years ago
1
Download newest data for existing query
#1
RaphaelMeudec
closed
1 year ago
2
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