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jernst98
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ChromHMM
GNU General Public License v3.0
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NeighborhoodEnrichment error
#60
katsikora
closed
1 month ago
2
On this data the INFORMATION initialization strategy can only support 4 states
#59
LHXqwq
closed
3 days ago
9
Abnormal annotation at the end of some chromosomes when using LearnModel command
#58
bio-lilin
closed
3 months ago
2
Reorder genomic annotations and TSS neighborhood
#57
jmzvillarreal
closed
6 months ago
2
how to choose the way of binarization, independently, concatenated or stacking?
#56
JhinAir
closed
9 months ago
2
Base from OverlapEnrichment command
#55
hanrong498
closed
9 months ago
4
chromHMM input choice and annotation of external bed file
#54
cleliacort
closed
11 months ago
1
Only the first 10% of the contigs outputted
#53
johannesnicolaus
closed
1 year ago
2
OverlapEnrichment in LearnModel and standalone gives different results
#52
isidorabi
closed
1 year ago
2
model_N.txt file clarification
#51
NMaziak
closed
1 year ago
1
Error when using ConvertGeneTable function
#50
johannesnicolaus
closed
8 months ago
3
ConvertGeneTable: Exception in thread "main" java.lang.IllegalArgumentException: invalid strand
#49
OscarAramburu
closed
1 year ago
4
Coverage as Learnmodel input feature
#48
NickPanyushev
closed
2 years ago
7
Binarized data
#47
makc-sel
closed
2 years ago
2
WGBS binarization
#46
makc-sel
closed
2 years ago
3
output truncates chromosomes
#45
umasstr
closed
2 years ago
4
Exception in thread "main" java.lang.UnsatisfiedLinkError:
#44
El-Castor
closed
2 years ago
7
Exception` in thread "main" java.util.zip.ZipException: invalid distance too far back
#43
Simple53
closed
2 years ago
4
nullpointerexception error while running CompareModels
#42
SplitInf
closed
2 years ago
2
discrepancy between X_Y_overlap.png and X_Y_overlap.txt
#41
keksundso
closed
2 years ago
2
Removing multi-mapping reads when using ChromHMM
#40
rauldiul
closed
2 years ago
1
Compare with 2 different result
#39
dahun73
closed
3 years ago
4
Is there any suitable way to compare the states of different tissue?
#38
shangguandong1996
closed
3 years ago
1
Chromatin marks for ChIP seq data
#37
AIqbal94
closed
3 years ago
4
ChromHmm output segment file of varying segment size
#36
mujahida87
closed
3 years ago
2
ConvertGeneTable "main" java.util.NoSuchElementException
#35
yussufhajjaj
closed
3 years ago
10
Credible interval of fold-enrichment (OverlapEnrichment functionality)
#34
snaketron
closed
3 years ago
4
ChromHMM v1.21 errors: java.lang.OutOfMemoryError
#33
AdrijaK
closed
3 years ago
2
overlap enrichment issue
#32
AicuiZhang
closed
3 years ago
2
Applying segmentation analysis to ChIP-seq data from DNA binding proteins
#31
MahShaaban
closed
3 years ago
4
Model fit and uncertainity of the estimates
#30
MahShaaban
closed
3 years ago
4
Why is 'binarizeBed -peaks' not recommended for broad peaks?
#29
eregenyi
closed
3 years ago
1
how to associate color and FoldEnrichment in OverlapEnrichment result
#28
shangguandong1996
closed
4 years ago
2
Keep reporting error when I try to run CompareModels
#27
Ruitulyu
closed
4 years ago
7
error in binarizeSignal
#26
KailiBio
closed
4 years ago
1
"flankwidthcontrol" in Preprocess
#25
zhangnan0107
closed
4 years ago
1
chromHMM overlap enrichments error for input string: "E"
#24
fionaandcake11
closed
4 years ago
1
ChromHMM BinarizeBam error "Permission denied"
#23
HasseB-MAN
closed
4 years ago
1
Understanding of OverlapEnrichment command
#22
El-Castor
closed
5 years ago
1
bam not found by BinarizeBam command
#21
El-Castor
closed
5 years ago
5
NoSuchElementException in ConvertGeneTable
#20
NBKingsley
closed
3 years ago
12
NullPointerException in ConvertGeneTable
#19
retropc66
closed
5 years ago
2
ChromHMM state transmissions
#18
StefanKurtenbach
closed
5 years ago
1
Sliding window bins vs. separate bins
#17
snaketron
closed
5 years ago
1
ChromHMM overlap enrichment
#16
josruirod
closed
6 years ago
1
ChromHMM with additional genomes
#15
kernco
closed
6 years ago
2
Calculation of Overlap/Neighborhood/Enrichment
#14
snaketron
closed
6 years ago
1
Coordinates in CpGIsland.MSU7.bed not assigned to any state
#13
mforoozani1
closed
6 years ago
4
Push data files into git repository
#12
daissi
closed
6 years ago
1
Please use release tags
#11
tillea
closed
6 years ago
1
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