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EBI-Metagenomics
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MGnifyR
R package for searching, downloading and analysis of EBI MGnify metagenomics data
https://ebi-metagenomics.github.io/MGnifyR/
Artistic License 2.0
19
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10
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Updates to code and documentation
#46
TuomasBorman
opened
1 week ago
1
Link to notebooks
#45
antagomir
opened
2 weeks ago
0
Improve documentation
#44
TuomasBorman
opened
2 weeks ago
0
Warning: 'loadFromBiom' is deprecated. Use 'importBIOM'
#43
artur-sannikov
opened
3 weeks ago
0
Fixes related to Bioc submission
#42
TuomasBorman
closed
3 months ago
0
Fix IMPORTS
#41
TuomasBorman
closed
3 months ago
0
Final changes for Bioc submission
#40
TuomasBorman
closed
3 months ago
0
Add FindingPheno acknowledgement
#39
TuomasBorman
closed
3 months ago
0
Enable GHA for mac and win
#38
TuomasBorman
closed
3 months ago
0
Fix cache
#37
TuomasBorman
closed
3 months ago
0
Error during installation
#36
vgopikaa
closed
1 week ago
3
Add getData function
#35
TuomasBorman
closed
4 months ago
0
Fix doQuery
#34
TuomasBorman
closed
4 months ago
0
Remove memory cache
#33
TuomasBorman
closed
5 months ago
0
Bugfix, doQuery
#32
TuomasBorman
closed
5 months ago
0
Bugfix, doQuery does not work with multiple accession IDs
#31
TuomasBorman
closed
5 months ago
0
Update examples at EBI
#30
antagomir
opened
5 months ago
0
Create sticker image for this pkg (at least for the website)?
#29
antagomir
opened
5 months ago
3
Add assemblies to doQuery
#28
TuomasBorman
closed
5 months ago
0
doQuery() error with assemblies
#27
Cal-Thoma
closed
4 months ago
10
Bioconductor finalization
#26
TuomasBorman
closed
4 months ago
0
Add link to MGnify itself in the README
#25
antagomir
opened
6 months ago
0
Fix vignette
#24
TuomasBorman
closed
7 months ago
0
Fix vignette
#23
TuomasBorman
closed
7 months ago
0
Fix for Bioc submission
#22
TuomasBorman
closed
7 months ago
2
Fix for Bioc submission
#21
TuomasBorman
closed
8 months ago
0
Finalize for Bioconductor submission
#20
TuomasBorman
closed
8 months ago
1
Fixes
#19
TuomasBorman
closed
9 months ago
0
Update examples to OMA
#18
antagomir
opened
9 months ago
0
MGnifyR - query samples by depth
#17
alexschickele
opened
11 months ago
0
Add warnings and checks
#16
RiboRings
closed
1 year ago
0
Polish
#15
antagomir
closed
1 year ago
1
Kg branch 3
#14
kgatel
closed
1 year ago
1
Kg branch 2
#13
kgatel
closed
1 year ago
0
Fixes
#12
antagomir
closed
1 year ago
1
Kg branch
#11
kgatel
closed
1 year ago
0
Kg branch 2
#10
kgatel
closed
1 year ago
0
MGnifyR filter out samples during the phyloseq object building step
#9
Ales-ibt
opened
1 year ago
1
Locate fastq data associated with MGnify analyses
#8
s-meaden
opened
2 years ago
0
R commands tutorial
#7
kgatel
closed
1 year ago
2
Support for the (Tree)SummarizedExperiment data container
#6
antagomir
opened
2 years ago
3
Diversity indices
#5
mweberr
opened
2 years ago
0
Can we download .fna files of all MAGs from species catalogues through MGnifyR?
#4
yazhinia
closed
2 years ago
2
mgnify_get_analyses_results stops with the error: Error in t.default(unlist(c(json$attributes[baseattrlist], metlist))) : argument is not a matrix
#3
rigormortis0
closed
2 years ago
1
Could not find function "mgnify_get_downloads"
#2
stitam
closed
2 years ago
1
mgnify_get_download_urls stops with the following error: Error in `colnames<-`(`*tmp*`, value = `*vtmp*`) : attempt to set 'colnames' on an object with less than two dimensions
#1
kafker
closed
2 years ago
3