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microbiome
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mia
Microbiome analysis
https://microbiome.github.io/mia/
Artistic License 2.0
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Compute and plot feature loadings in ordination methods
#596
thpralas
opened
12 hours ago
0
Fixes to mia (OMA issue #482)
#595
ake123
opened
13 hours ago
1
Remove tree rooting in calculateUnifrac
#594
Daenarys8
closed
14 hours ago
1
Fixes to mia (OMA issue #482)
#593
ake123
closed
14 hours ago
1
diversity functions correction #482
#592
ake123
closed
1 week ago
0
Rename converters
#591
thpralas
closed
1 day ago
2
import functions and ranks
#590
TuomasBorman
opened
1 week ago
2
remove as.relative param
#589
Daenarys8
closed
10 hours ago
0
Fix tree merging
#588
TuomasBorman
closed
15 hours ago
30
Deprecate MARGIN param
#587
Daenarys8
closed
8 hours ago
2
Update unit test for unifrac
#586
TuomasBorman
closed
2 weeks ago
0
Improve documentation
#585
TuomasBorman
opened
2 weeks ago
2
Deprecate z transform in transformAssay
#584
Daenarys8
closed
2 weeks ago
1
z transformation naming to change
#583
antagomir
closed
1 week ago
4
Organize parameter names v2
#582
Daenarys8
closed
2 weeks ago
18
Clarify detection (#580)
#581
artur-sannikov
closed
2 weeks ago
0
Detection vs prevalence improve documentation
#580
artur-sannikov
closed
1 week ago
1
Organize parameter names
#579
Daenarys8
closed
2 weeks ago
0
Rename MARGIN
#578
TuomasBorman
opened
2 weeks ago
1
prevalence functions and as_relative parameter
#577
TuomasBorman
opened
2 weeks ago
0
Minor fix to message
#576
TuomasBorman
closed
2 weeks ago
0
fix tree agglomeration in agglomerateByPrevalence
#575
thpralas
closed
16 hours ago
3
WIP: Import taxpasta
#574
Midnighter
opened
3 weeks ago
3
agglomerateByPrevalence does not return rowTree
#573
thpralas
closed
16 hours ago
1
remove only empty rank cols
#572
Daenarys8
closed
2 weeks ago
7
Update pseudocount
#571
Daenarys8
closed
3 weeks ago
0
Use agglomerateByVariable when onRankOnly = FALSE
#570
Daenarys8
closed
3 weeks ago
2
Merging trees
#569
TuomasBorman
closed
15 hours ago
1
remove_empty_ranks in agglomerateByRanks
#568
TuomasBorman
closed
2 weeks ago
0
fix addDominant test
#567
thpralas
closed
2 weeks ago
4
fix addDominant arguments and tests
#566
thpralas
closed
3 weeks ago
0
Error using mia::transformCounts
#565
CecileBlanchon
opened
3 weeks ago
3
pseudocount
#564
TuomasBorman
closed
3 weeks ago
0
add informative error message for strictly-negative values in rarefyAssay
#563
thpralas
closed
3 weeks ago
0
Organize parameter names
#562
Daenarys8
closed
2 weeks ago
11
Use vegan in rarefy
#561
TuomasBorman
opened
1 month ago
1
Error length.out in subsampleCounts()
#560
imonteroo
opened
1 month ago
3
Unclear matrix row after agglomerateByRank
#559
maartenciers
opened
1 month ago
6
mergeSEs: tree merging
#558
TuomasBorman
closed
15 hours ago
2
Add function to add tree
#557
Daenarys8
closed
1 week ago
7
Fixes to agglomeration
#556
TuomasBorman
closed
3 weeks ago
19
Add explanation to rarefyAssay man page
#555
thpralas
closed
1 month ago
0
Integrate agglomerateBy* functions
#554
TuomasBorman
closed
1 month ago
0
Delete mia.Rproj
#553
TuomasBorman
closed
1 month ago
0
Minor agglomeration fixes
#552
TuomasBorman
closed
1 month ago
0
Fix agglomeration of trees
#551
TuomasBorman
closed
1 month ago
1
Fix rworkflows
#550
TuomasBorman
closed
1 month ago
1
Remove extra assays and reducedDims from Tengeler2020
#549
RiboRings
closed
1 month ago
0
Tree agglomeration fix
#548
TuomasBorman
closed
1 month ago
0
getHierarchyTree: empty cells
#547
TuomasBorman
closed
1 month ago
0
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