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10XGenomics
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vartrix
Single-Cell Genotyping Tool
MIT License
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Unequal number of reference reads
#73
grasshoffm
opened
2 years ago
4
[ERROR] Sequence 1 not seen in FASTA
#72
rohankodgule
closed
2 years ago
1
Coverage of reads when using umi mode
#71
korakusa
opened
2 years ago
1
Can one include this software into a nextflow pipeline?
#70
stela2502
closed
1 year ago
1
Support bgzip fasta file
#69
timoast
opened
2 years ago
0
Out of Memory Error for MT library
#68
grasshoffm
opened
2 years ago
0
error of vcf format
#67
songeric1107
opened
2 years ago
1
vartrix Crash Report
#66
sanchezy
closed
1 year ago
2
hello.How to judge the validity of the results? The results I run are completely different from those of cellSNP-Lite
#65
liudagehhhhhh
closed
2 years ago
0
VarTrix calls reference reads in a cell line that does not contained reference reads
#64
dcruz5h
opened
2 years ago
0
What does consensus value equals to 2 mean?
#63
mzhang0215
opened
2 years ago
0
Unable to use the tool
#62
adhisadi
closed
2 years ago
2
Do not transpose snv_matrix in the vignette
#61
stephenwilliams22
closed
3 years ago
0
Calling the same physical positions between sequencing runs
#60
gertzem
opened
3 years ago
3
vartrix drops barcodes so that output files can no longer be linked to the original barcodes
#59
ejvandenoord
opened
3 years ago
2
No alt reads for called SNPs
#58
grasshoffm
opened
3 years ago
0
Best strategy for non-coding variants
#57
RegnerM2015
opened
3 years ago
0
Genotyping cancer cells (non-diploid)
#56
RegnerM2015
closed
3 years ago
1
Crash report
#55
Ping-lin14
closed
3 years ago
0
Cell number differ between input and output
#54
MagpiePKU
closed
3 years ago
11
Error in VCF format ?
#53
atourneu
opened
3 years ago
3
Error writing out-matrix
#52
sylvia-science
closed
3 years ago
1
MacOS Binary
#51
rschauner
closed
3 years ago
1
Thank you @pmarks, I just tried to delete the entire source file and download from release page again, after I run cargo test --release, I could not compile the new source file. The error goes as following:
#50
Antioxidantcoco
closed
3 years ago
1
Generating VCF File
#49
sahh04
closed
3 years ago
1
Error on compiling on source
#48
Antioxidantcoco
closed
3 years ago
2
vartrix crashes with "assertion failed: col < self.cols"
#47
gokceneraslan
closed
3 years ago
2
Error in VCF format?
#46
xiweiwu
opened
4 years ago
1
Error starting VarTrix
#45
michelgw
closed
3 years ago
10
add to meta data on seurat
#44
ahdee
closed
4 years ago
0
discrepancy between alt_frac and coverage methods
#43
igordot
opened
4 years ago
1
Use the 10x toolchain Docker image
#42
sjackman
closed
4 years ago
3
output matrix alt_frac mode NaNs
#41
igordot
opened
4 years ago
0
try and build in toolchain
#40
pmarks
closed
4 years ago
0
pre-compiled binaries
#39
igordot
closed
4 years ago
6
Compile issue
#38
moravveji
closed
4 years ago
6
About the [ERROR]: The resulting matrix has a sum of 0.
#37
WeiZhu1998
closed
4 years ago
13
work with 2-strain vcf
#36
CarnoZhao
closed
4 years ago
3
Is there any way to speed the program?
#35
YiweiNiu
closed
4 years ago
7
the problem of Installation
#34
crystal0721
closed
4 years ago
1
Annotation of no called, ref/ref, alt/alt, and alt/ref
#33
zezhuo
closed
4 years ago
1
'Number of alignments skipped due to not being useful'
#32
Puriney
closed
4 years ago
1
Would be number of UMIs for '--umi' with '--scoring-method coverage'?
#31
Puriney
closed
4 years ago
1
Any manuscript to further elaborate on how vartrix works in details?
#30
Puriney
opened
4 years ago
0
crash reports
#29
ruqianl
closed
4 years ago
8
option for no smith-waterman in the case of only looking at snps and speed issues with many 0 depth loci
#28
wheaton5
opened
4 years ago
7
position of variants(output) is different from the vcf(input)
#27
quanc1989
opened
5 years ago
4
VCF preparation for per base extraction
#26
ahy1221
opened
5 years ago
2
Smarter validation of output paths for v1.1.3.
#25
ifiddes-10x-zz
closed
5 years ago
0
Allow for alternative tags.
#24
ifiddes-10x-zz
closed
5 years ago
0
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