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MarioniLab
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scran
Clone of the Bioconductor repository for the scran package.
https://bioconductor.org/packages/devel/bioc/html/scran.html
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pseudoBulkDGE interaction term
#122
ynpan910
opened
4 weeks ago
2
Small tweak to scaledColRanks()
#121
hpages
closed
1 month ago
1
Feature Request: pseudoBulkDGE for Non-Integer Batch-corrected Data
#120
DarioS
opened
2 months ago
2
pseudoBulkDGE - logFC means upregulated in which condition?
#119
jcasadogp
opened
4 months ago
1
Cyclone Computational Efficiency
#118
DarioS
closed
5 months ago
3
Error with cyclone
#117
SarahE97
opened
5 months ago
1
rank.logFC.detected Produces Dubious Rankings
#116
DarioS
opened
7 months ago
4
Integer Overflow
#115
DarioS
closed
7 months ago
2
`scran::findMarkers` always return all available markers as differential, albeit with different p-values
#114
denvercal1234GitHub
closed
1 year ago
4
sizeFactors for mixed patient samples
#113
flde
closed
10 months ago
2
Marker detection in multimodal data
#112
PeteHaitch
opened
1 year ago
1
`scoreMarkers()`: Parallelisation changes `rank.*` statistics
#111
PeteHaitch
closed
1 year ago
2
DEG results only contain downregulated gene
#110
littleju777
closed
1 year ago
2
fix error unused argument objective_function when pass both block and graph.fun
#109
Yunuuuu
closed
1 month ago
1
Error in FUN(x, table, nomatch = nomatch, incomparables = incomparables) : 'match' requires vector arguments
#108
galaxyeee
opened
1 year ago
3
add weights in pseudbulkDGE for edgeR analysis
#107
koenvandenberge
opened
1 year ago
4
cant load scran
#106
christoforos-dimitropoulos
closed
1 year ago
6
Implement the https://satijalab.org/seurat/reference/findsubcluster
#105
Yunuuuu
closed
1 year ago
10
Old versions disappeared from bioconductor?
#104
scottgigante-immunai
closed
1 year ago
3
Error normalizing Anndata
#103
Mari123i
opened
2 years ago
0
Depreciated scran functions and commands. Any updated tutorial?
#102
levinhein
opened
2 years ago
0
scran normalize
#101
jayypaul
opened
2 years ago
1
Different list for findmarker function
#100
angkoomin
opened
2 years ago
1
Receiving 'ref.clust' not in 'clusters' for cluster label that is part of predefined clusters
#99
xlancelottx
closed
2 years ago
5
Cyclone not finishing when using BPPARAM=MulticoreParam(workers = n))
#98
Hrovatin
opened
2 years ago
0
BiocParallel errror (invalid length of row names) in combineMarkers() with full.stats = TRUE
#97
CyrilLagger
closed
2 years ago
2
Error in (function (classes, fdef, mtable) : unable to find an inherited method for function ‘assay’ for signature ‘"dgRMatrix", "character"’
#96
houruiyan
opened
2 years ago
1
escape % in Roxygen doc
#95
bug1303
closed
2 years ago
1
Add lfc= option back to scoreMarkers
#94
LTLA
closed
3 years ago
0
error using scaledColRanks
#93
doliv071
closed
3 years ago
3
A simpler, more streamlined function to compute marker scores.
#92
LTLA
closed
3 years ago
0
Installation is failing
#91
prvst
closed
3 years ago
6
`pseudoBulkDGE()` intermediates dropped if `row.data` supplied
#90
PeteHaitch
closed
3 years ago
1
findmarkers summary.logFC values
#89
cstrlln
closed
6 months ago
1
Fall back to combining pure one-sided tests for direction=any.
#88
LTLA
closed
3 years ago
0
Installation of package ‘scran’ had non-zero exit status
#87
awurmser
opened
3 years ago
2
findMarkers produces unexpectedly different results with passing different values to direction
#86
wir963
closed
3 years ago
11
inter-cluster rescaling factors are not strictly positive
#85
Hrovatin
closed
3 years ago
2
Add a fixedPCA function to avoid relying on scater::runPCA
#84
LTLA
closed
3 years ago
1
getTopHVGs should just call modelGeneVar if applied on an SCE
#83
LTLA
closed
3 years ago
0
Can I use BuildSNNGraph on scWGBS data?
#82
xiaonian92
opened
3 years ago
2
"assay.type" in the modelGeneVarByPoisson man page
#81
ycl6
closed
3 years ago
1
psuedoBulkDGE
#80
elachtarajax
opened
3 years ago
5
Streamlined the correlation computation machinery.
#79
LTLA
closed
3 years ago
0
decideTestsPerLable() ignores value of pval.field
#78
PeteHaitch
closed
3 years ago
2
DESCRIPTION: add links to GitHub
#77
mr-c
closed
1 month ago
4
Use bluster::clusterRows by default in getClusteredPCs
#76
LTLA
closed
3 years ago
0
Implement bootstrapCluster for clusters generated in Seurat
#75
lucygarner
opened
3 years ago
6
Error in denoisePCA : NA indices are not supported for sparse matrix
#74
ljouneau
closed
3 years ago
5
Pseudobulk DGE
#73
jennapappalardo
closed
3 years ago
4
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