Log In
Sign Up
about
faq
Ask a question
Latest
News
Jobs
Tutorials
Tags
Users
New Post
Latest
News
Jobs
Tutorials
Tags
Users
Log In
Sign Up
About
Limit
all time
today
this week
this month
this year
Unanswered
All posts
Sort
Update
Answers
Bookmarks
Creation
Replies
Rank
Views
Votes
Showing :
dropletutils
•
reset
7
votes
12
replies
7.1k
views
How to identify real cells in 10X RNA-seq ?
single-cell
10X
Cell calling
DropletUtils
cellranger
updated 5.2 years ago by
Aaron Lun
★ 28k • written 5.2 years ago by
xingxd16
▴ 20
5
votes
1
reply
4.5k
views
Error with DropletUtils::EmptyDrops()
DropletUtils
EmptyDrops
simpleSingleCell
updated 21 months ago by
Stefano Mangiola
▴ 10 • written 4.7 years ago by
shbrief
▴ 20
7
votes
2
replies
2.4k
views
Recommendations for combining multiple 10x runs into one SingleCellExperiment
singlecellexperiment
dropletutils
simplesinglecell
updated 5.6 years ago by
Aaron Lun
★ 28k • written 5.6 years ago by
Peter Hickey
▴ 740
4
votes
5
replies
2.3k
views
`emptyDrops()` calling 'too many' non-empty droplets
DropletUtils
emptyDrops
scRNA
scRNAseq
10x
21 months ago • updated 20 months ago
Peter Hickey
▴ 740
4
votes
5
replies
2.0k
views
emptyDrops identified less non-empty cells with lower total UMI counts?
DropletUtils
scRNA-seq
emptyDrops
simplesinglecell
cell calling
updated 3.5 years ago by
Aaron Lun
★ 28k • written 4.7 years ago by
C T
▴ 140
1
vote
3
replies
1.9k
views
10X FeatureBarcode producing too many "cells"
SingleCellExperiment
DropletUtils
SingleCellData
updated 3.3 years ago by
Aaron Lun
★ 28k • written 3.3 years ago by
msn
▴ 10
0
votes
4
replies
1.8k
views
Error importing molecule_info.h5 file generated by Cell Ranger 3.0.2 into DropletUtils
DropletUtils
h5
updated 5.1 years ago by
Aaron Lun
★ 28k • written 5.1 years ago by
Matthew Thornton
▴ 350
1
vote
3
replies
1.7k
views
Troubles with barcodeRanks()
DropletUtils
SingleCellExperiement
DelayedArray
simpleSingleCell
updated 4.9 years ago by
Aaron Lun
★ 28k • written 4.9 years ago by
Steve Pederson
▴ 170
0
votes
8
replies
1.6k
views
DropletUtils::read10xCounts error
read10xCounts
DropletUtils
15 months ago
fdumetz
• 0
0
votes
7
replies
1.5k
views
DropletUtils::swappedDrops more cells than using Read10x with filtered_feature_bc_matrix files
10x genomics
DropletUtils
single cell RNA seq
updated 4.2 years ago by
Aaron Lun
★ 28k • written 4.2 years ago by
gil.stelzer
• 0
1
vote
6
replies
1.4k
views
DropletUtils::swappedDrops segfault memory not mapped
DropletUtils
3.0 years ago • updated 2.9 years ago
wesselyf
• 0
2
votes
4
replies
1.3k
views
Error when reading data with DropletUtils::read10xCounts
DropletUtils
updated 5.9 years ago by
Aaron Lun
★ 28k • written 5.9 years ago by
fabrost
• 0
1
vote
2
replies
1.3k
views
Segmentation Fault with development versions of R, Bioconductor, and DropletUtils when processing output of CellRanger 3.0.2
DropletUtils
Bioc-devel
5.1 years ago
Matthew Thornton
▴ 350
2
votes
5
replies
1.2k
views
Recommendations for running DropletUtils::swappedDrops() on multiplexed samples from multiple libraries
dropletutils
swappeddrops
updated 5.0 years ago by
Aaron Lun
★ 28k • written 5.0 years ago by
rosano
• 0
0
votes
3
replies
1.2k
views
Running DropletUtils::swappedDrops() on multiplexed samples from different libraries
swappeddrops
dropletutils
updated 4.5 years ago by
Aaron Lun
★ 28k • written 4.5 years ago by
rosano
• 0
1
vote
5
replies
1.2k
views
about DropletUtils and scRNA-seq
dropseq
dropletutils
droplet
updated 5.3 years ago by
Aaron Lun
★ 28k • written 5.3 years ago by
Bogdan
▴ 670
2
votes
4
replies
1.2k
views
Does hashedDrops support 'imbalanced' combinations of HTOs?
DropletUtils
scRNAseq
updated 3.2 years ago by
Aaron Lun
★ 28k • written 3.2 years ago by
Peter Hickey
▴ 740
0
votes
2
replies
1.1k
views
DropletUtils barcodeRanks bug (?)
dropletutils
updated 5.4 years ago by
Aaron Lun
★ 28k • written 5.4 years ago by
jmanning
• 0
2
votes
2
replies
1.1k
views
What`s new features in DropletUtils version 1.3.10 comapred to version 1.2.2
DropletUtils
Bioconductor
singel cell
updated 5.2 years ago by
Aaron Lun
★ 28k • written 5.2 years ago by
xingxd16
▴ 20
1
vote
1
reply
1.0k
views
Number of non-empty drops returned by emptyDrops() depends on value of test.ambience
DropletUtils
emptyDrops
10x
updated 3.3 years ago by
Aaron Lun
★ 28k • written 3.3 years ago by
Peter Hickey
▴ 740
0
votes
1
reply
1.0k
views
Can DropletUtils Package be used to identify cells for 10X VDJ data ?
DropletUtils
10X 5` TCR
single cells
updated 5.1 years ago by
Aaron Lun
★ 28k • written 5.1 years ago by
xingxd16
▴ 20
0
votes
2
replies
1.0k
views
Scalability of emptyDrops() running times
dropletutils
emptydrops
updated 5.0 years ago by
Aaron Lun
★ 28k • written 5.0 years ago by
rosano
• 0
0
votes
4
replies
1.0k
views
DropletUtils' emptyDrops() fails with non-integer counts
DropletUtils
updated 4.7 years ago by
Aaron Lun
★ 28k • written 4.7 years ago by
jmanning
• 0
2
votes
1
reply
1.0k
views
barcodeRanks unusual warning "In smooth.spline(x[new.keep], y[new.keep], df = df, ...)"
DropletUtils
updated 3.0 years ago by
Aaron Lun
★ 28k • written 3.0 years ago by
rohitsatyam102
▴ 20
1
vote
4
replies
988
views
Is there a limitation to the number of cells swappedDrops can handle?
swappedDrops
DropletUtils
5.0 years ago
joseph.joonsang
• 0
0
votes
1
reply
976
views
Aberrant number of cells
CellBarcode
DropletUtils
emptyDrops()
Cellranger
scRNAseq
updated 2.0 years ago by
rohitsatyam102
▴ 20 • written 2.3 years ago by
gregoire.destreel
• 0
3
votes
2
replies
966
views
Should we apply DropletUtils on control case separately or on a common sce object.
DropletUtils
3.0 years ago
rohitsatyam102
▴ 20
1
vote
2
replies
919
views
In which order should you detect empty droplets / remove barcode swapping using DropletUtils?
dropletutils
updated 5.1 years ago by
s1437643
▴ 20 • written 5.1 years ago by
jma1991
▴ 70
3
votes
8
replies
909
views
DropletUtils read10xcounts adds the 12 Cell Multiplexing Oligo tags as gene names
DropletUtils
droplet
written 5 months ago by
pcantalupo
▴ 10
0
votes
1
reply
876
views
Using controlAmbience with multiple samples and conditions
DropletUtils
updated 2.3 years ago by
Aaron Lun
★ 28k • written 2.3 years ago by
jma1991
▴ 70
0
votes
1
reply
833
views
emptyDrops result is full NAs
scran
dropletUtils
scater
scRNA-Seq
4.9 years ago
hamza_karakurt
▴ 50
0
votes
1
reply
784
views
DropletUtils::swappedDrops - Kallisto instead of CellRanger?
DropletUtils
updated 3.4 years ago by
Aaron Lun
★ 28k • written 3.4 years ago by
mhalache
• 0
3
votes
1
reply
683
views
read10xCounts for Cell Ranger 7 Output
DropletUtils
updated 5 months ago by
ATpoint
★ 4.1k • written 19 months ago by
Dario Strbenac
★ 1.5k
0
votes
3
replies
679
views
insufficient unique points for computing knee/inflection points
DropletUtils
SingleCellData
updated 9 months ago by
ATpoint
★ 4.1k • written 9 months ago by
p.vlachou-efstathiou
• 0
1
vote
1
reply
657
views
Input format for `combinations` in `hashedDrops`
DropletUtils
updated 2.3 years ago by
Aaron Lun
★ 28k • written 2.3 years ago by
mikhael.manurung
▴ 270
35 results • Page
1 of 1
Recent ...
Replies
Answer: Once again a "Model matrix not full rank"
by
swbarnes2
★ 1.3k
Replicate numbers, like the 1 in control_1 are fine in sample names, but never add them to anything else in colData. From the computer's p…
Answer: limma Intercept vs No-intercept models completely changing DMR results?
by
Gordon Smyth
50k
I'll add a little bit of general advice to James' answer. You seem to have the misunderstanding that you can change the design matrix but …
Answer: package goseq seems to be not available on the latest version of R
by
Gordon Smyth
50k
It is true that goseq isn't available for Bioc 3.19. That is because goseq depends on txbmaker, which is itself not yet available for Bioc…
Answer: limma Intercept vs No-intercept models completely changing DMR results?
by
James W. MacDonald
65k
This part: ``` design_intercept <- model.matrix(~Alt+Sex+Age+PC1, data=targets_Sherpa) colnames(design_intercept) <- c("AltSHP_LA","Al…
Comment: CombineArrays for EPIC and EPIC V2
by
Kim
• 0
Thank you Tim, this is a great help in getting me started!
Votes
Answer: limma Intercept vs No-intercept models completely changing DMR results?
Answer: CombineArrays for EPIC and EPIC V2
Answer: Too many significant genes when integrating gtex and tcga
Comment: Too many significant genes when integrating gtex and tcga
A: Print Differentially Expressed Exons From Dexseq Results
Awards
• All
Popular Question
to
Gordon Smyth
50k
Popular Question
to
Zainab
• 0
Popular Question
to
Theo
▴ 10
Popular Question
to
gene_bioconductor
▴ 10
Popular Question
to
rohitsatyam102
▴ 20
Locations
• All
France,
21 minutes ago
Sweden,
32 minutes ago
WEHI, Melbourne, Australia,
1 hour ago
Miami, FL,
2 hours ago
Sweden,
2 hours ago
Traffic: 468 users visited in the last hour
Content
Search
Users
Tags
Badges
Help
About
FAQ
Access
RSS
API
Stats
Use of this site constitutes acceptance of our
User Agreement and Privacy Policy
.
Powered by the
version 2.3.6