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single-cell-genetics
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cellSNP
Pileup biallelic SNPs from single-cell and bulk RNA-seq data
Apache License 2.0
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Adapting cellSNP for gene-of-interest / indels / multiple scRNA-seq samples
#36
ychenab
opened
1 year ago
0
generating VCF for REGION_VCF from RNA-seq data
#35
gebdu
opened
1 year ago
1
Chromosome naming in reference VCF files
#23
apredeus
closed
2 years ago
11
KeyError: '.' in cellSNP/pileup_utils.py causing failure of temp file merging
#22
mpmargolis
closed
2 years ago
2
add citation
#21
hxj5
closed
3 years ago
0
Empty AD&DP mtx
#20
AnjaliC4
closed
3 years ago
23
AD in cells
#19
penglbio
opened
3 years ago
1
Some SNPs are not in gene
#18
penglbio
opened
3 years ago
1
Does it work for mouse？
#17
mengchengyao
closed
3 years ago
1
Wrong number of chromosomes in output file?
#16
VanessaOak
closed
3 years ago
3
Reference Genome
#15
OldManTae
opened
3 years ago
1
Running cellSNP on transcriptomic BAM from salmon alevin
#14
lmweber
opened
3 years ago
4
Change the flag filtering default to include PCR duplicates
#13
GWW
closed
3 years ago
4
Feature count
#12
huangyh09
closed
4 years ago
0
Fix using qqual and query_alignment_sequence
#11
hxj5
closed
4 years ago
0
Question about running cellSNP on merged BAM files from multiple samples
#10
lmweber
closed
4 years ago
4
Run time estimation
#9
PeteHaitch
opened
4 years ago
3
No SNPs called in more than 1 barcodes
#8
saisomesh2594
opened
4 years ago
3
output sparse matrix
#7
bio-la
closed
4 years ago
11
Is it expected to generate a "position x barcode" matrix?
#6
Griffan
closed
4 years ago
1
Default nan-handling policy is a memory hog
#5
ivanov-v-v
opened
4 years ago
1
RuntimeWarning: divide by zero encountered in log
#4
Griffan
closed
5 years ago
9
Run time estimation
#3
coh-racng
closed
5 years ago
1
Problem with New Version (0.1.3)
#2
elderni
closed
5 years ago
2
Optimisation suggestions
#1
Shians
opened
5 years ago
1