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10XGenomics
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cellranger
10x Genomics Single Cell Analysis
https://www.10xgenomics.com/support/software/cell-ranger
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How to add my own barcode whitelist?
#98
listen2099
closed
3 years ago
2
Loupeserver encountered an error
#97
RyanYip-Kat
closed
3 years ago
1
file not found when running cellranger with a smb cifs mount share
#96
aurelBZH
closed
3 years ago
1
R1 and R2 fastq
#95
huwenhuo
closed
8 months ago
3
Latest Cell Ranger version
#94
michael-kotliar
closed
3 years ago
1
Error checking installation
#93
marctormo
closed
3 years ago
2
Unable to distinguish between [SC5P-R2, SC3Pv2] chemistries based on the R2 read mapping for Sample
#92
CadenZhao
closed
3 years ago
6
troobleshooting creating custom reference with cellranger-atac
#91
El-Castor
closed
3 years ago
2
Cellranger count error version3.1.0
#90
martitroiani
closed
2 years ago
1
Pipestance failed. Use --noexit option to keep UI running after failure.
#89
zoe106
closed
3 years ago
8
For "cellranger count," what is the underlying feature counting algorithm?
#88
olgabot
closed
3 years ago
1
the difference between CellRanger Vesion 3.0.2 and 3.1.0
#87
wangteng0605
closed
3 years ago
1
Saving memory with np.argsort
#86
andreasg123
closed
3 years ago
1
Filter first or count first?
#85
andreasg123
closed
2 years ago
1
Bump pyyaml from 3.11 to 5.1 in /lib/python/fbpca/docs
#84
dependabot[bot]
closed
3 years ago
1
Bump pyyaml from 3.11 to 5.1 in /lib/python/fbpca
#83
dependabot[bot]
closed
3 years ago
1
Feature Request -- for Cellranger count -- specify output directory with `--dir`
#82
J-Moravec
closed
8 months ago
15
snRNA Seq data show 0% alignment with lncRNAs
#81
biobug16
closed
8 months ago
0
cellranger vdj defined less cells, than expected
#80
soda-bottle
closed
8 months ago
1
How can I aggr spatial dataset
#79
yejg2017
closed
4 years ago
1
Reanalyze older BAM?
#78
J-Moravec
closed
4 years ago
1
Mapping FASTQs with de novo transcriptome assembly
#77
s849
closed
8 months ago
0
Splice junction reads are possibly ignored when custom pre-mRNA reference is used
#76
gokceneraslan
closed
8 months ago
8
Unexpected failure at chunk_reads
#75
jrknoedler
closed
4 years ago
1
Cell number looks different after using cellranger aggr
#74
WayneForever
closed
4 years ago
2
Thanks!And I want to ask for help for an another problem.When I run cellranger-atac count with fastqs:
#73
yejg2017
closed
4 years ago
1
[error] FASTQ files differ in number. Exiting pipeline.
#72
yejg2017
closed
4 years ago
2
filtered_feature_bc_matrix batch effect
#71
WellJoea
closed
4 years ago
1
the v_gene is None in all of samples with the command of cellranger vdj
#70
WellJoea
closed
8 months ago
2
Anyone used for unmodified HTO primers vs. modified HTO primers?
#69
Jimmyyun
closed
4 years ago
1
InvalidAccessKeyId
#68
shaaaarpy
closed
4 years ago
1
'Found 0 or >1 features for confidently mapped read/pair
#67
shaaaarpy
closed
4 years ago
1
Unable to convert single cell RNA Seq bam to fastq using cellranger's bamtofastq
#66
biobug16
closed
8 months ago
1
release 3.1.0
#65
idot
closed
4 years ago
2
Process possorted bam directly to count matrix
#64
jasperpanten
closed
4 years ago
1
update mkfastq --qc to reliably parse Novaseq metrics
#63
jfx319
closed
8 months ago
0
Making a new reference for 10X genomics data
#62
biobug16
closed
4 years ago
4
How can I convert a barcoded bam to read count matrix?
#61
biobug16
closed
4 years ago
1
found genes in expression matrix that are not in the gtf, all end in .1
#60
slyahn
closed
4 years ago
1
You must specify either a samplesheet or CSV file.
#59
yueli8
closed
8 months ago
0
problem in install cellranger
#58
yueli8
closed
4 years ago
1
mask and data not compatible
#57
tysonoggie
closed
4 years ago
0
invalid number of arguments
#56
tysonoggie
closed
4 years ago
0
Suggestion: using refgenie for reference indexes
#55
nsheff
closed
8 months ago
3
Fastq format???
#54
yejg2017
closed
8 months ago
2
How to Pip Install CellRanger ?
#53
benstaf
closed
4 years ago
2
Where is Cellranger for Python 3?
#52
benstaf
closed
4 years ago
3
How the clonotypes are defined by cellranger vdj?
#51
YiweiNiu
closed
8 months ago
2
Error message is not printed during cellranger-atac mkref
#50
lparsons
closed
8 months ago
0
cellranger count-error fetching fastq file
#49
Chenmengpin
closed
8 months ago
1
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