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JEFworks-Lab
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HoneyBADGER
HMM-integrated Bayesian approach for detecting CNV and LOH events from single-cell RNA-seq data
http://jef.works/HoneyBADGER/
GNU General Public License v3.0
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variable name mixed error and bug fixed
#49
Rongtingting
closed
2 years ago
1
Error in calcCombCnvProb
#48
Rongtingting
opened
3 years ago
1
built-in function `names` conflict
#47
Rongtingting
closed
3 years ago
1
Error in summarizeResults for the allele-based approach
#46
myrthesmit
opened
3 years ago
0
error in hb$summarizeResults
#45
UmairSeemab
opened
3 years ago
0
Applying bayesian hierarchical model in integrating analyses tutorial
#44
viraj-rapolu
closed
3 years ago
0
showing NULL in the step of calcGexpCnvBoundaries - getting started tutorial
#43
Rongtingting
closed
3 years ago
12
no method for coercing this S4 class to a vector
#42
Joanne-PYL
opened
3 years ago
3
Showing error when trying Getting_Started.Rmd
#41
Joanne-PYL
opened
3 years ago
0
Error: Failed to install 'HoneyBADGER' from GitHub
#40
yaskermezli
closed
3 years ago
2
gene filtering different in HoneyBADGER object
#39
JocelynSP
opened
3 years ago
3
What is the reason for only including snps in HoneyBADGER?
#38
Pentayouth
closed
3 years ago
2
speed of running setAlleleMats step
#37
lixin4306ren
opened
4 years ago
0
Filtering of identified CNVs
#36
Josephinedh
opened
4 years ago
2
read bam files
#35
cq2019
closed
4 years ago
4
Error: subscript contains invalid names
#34
suyanxun
opened
4 years ago
9
Error in calcGexpCnvBoundaries when running with numeric chromosome names
#33
asabjorklund
opened
4 years ago
1
Error in summarizeResults
#32
rosaranli
opened
4 years ago
3
10X + Honeybadger question
#31
NienkeMekkes
closed
4 years ago
2
Allele-mode for selecting normal cells
#30
hyristi
closed
4 years ago
2
Warning in setGeneFactors and error in retestIdentifiedCnvs
#29
rosaranli
opened
4 years ago
0
lt$setGexpDev
#28
BoXiaHB
closed
5 years ago
1
how to parallelize "calcGexpCnvBoundaries" and "retestIdentifiedCnvs" ?
#27
songw01
closed
4 years ago
1
Error in calcAlleleCnvBoundaries
#26
JLTrincado
opened
5 years ago
3
error when connecting to BioMart
#25
HaotengYan
closed
5 years ago
2
10x data normalization problem
#24
mariamonberg
closed
4 years ago
3
Errors in getSnpMats, getSnpMats10X, and getCellAlleleCount: unable to find an inherited method for function ‘seqnames’ for signature ‘"DataFrame"’
#23
koetjen
closed
5 years ago
6
Add "next step" link to tutorial
#22
romagnolid
closed
4 years ago
1
vcf files for heterozygous SNPs
#21
photoonh
closed
4 years ago
6
error in retestIdentifiedCnvs
#20
akdess
opened
5 years ago
4
example data starting from counts (not scaled or centered)
#19
brianjohnhaas
closed
5 years ago
3
Gene expression normalization
#18
lijiang825
closed
5 years ago
1
error about "getCellAlleleCount" command line
#17
zhuxqdoctor
closed
4 years ago
13
Docs fixes
#16
mwiens91
opened
5 years ago
0
Hi
#15
1583767448
closed
5 years ago
5
Usage of HoneyBADGER on 10x data?
#14
kokonech
closed
5 years ago
5
error in summarizeResults
#13
csimona
closed
5 years ago
2
Error: dim(X) must have a positive length
#12
romanhaa
closed
5 years ago
2
refCount and altCount matrixes are everywhere zero
#11
elimereu
closed
5 years ago
2
reference for gene expression
#10
elimereu
closed
5 years ago
2
add section on scAlleleCount in documentation
#9
barkasn
closed
6 years ago
0
unable to install HoneyBADGER packge
#8
hmassalha
closed
6 years ago
3
Package exports object named ref
#7
barkasn
closed
6 years ago
3
Seurat and Honeybadger are not compatible
#6
saeedsaberi
closed
6 years ago
2
How to prepare reference expression?
#5
saeedsaberi
closed
6 years ago
7
Using conda
#4
saeedsaberi
closed
6 years ago
0
When should I use HoneyBADGER
#3
saeedsaberi
closed
6 years ago
2
Add files via upload
#2
JEFworks
closed
6 years ago
0
Parameter tweaking for no CNV identified
#1
ahy1221
closed
6 years ago
16