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PengNi
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ccsmeth
Detecting DNA methylation from PacBio CCS reads
BSD 3-Clause Clear License
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add --ss function in extract_feature
#52
yczyc2020
closed
3 weeks ago
0
Methylation frequency of the aggregate mode
#51
ywzhang071394
closed
2 months ago
1
call_mod error in vision 0.5.0
#50
Songmg-Nwafu
opened
5 months ago
1
Results based on count and model at the genome level is different
#49
HITzhongyu
opened
10 months ago
0
IndexError while running ccsmeth call_mods
#48
suvi93
opened
10 months ago
10
Extract features file
#47
yycunc
opened
11 months ago
2
Index error during align_reads in denovo mode
#46
Surbhigrewal
opened
11 months ago
2
How to train a model to infer the site-level methylation frequency
#45
Songmg-Nwafu
closed
1 year ago
2
A question about the frequency threshold determination
#44
Wyinghao
closed
1 year ago
3
Methylation Data Labels Problems
#43
XiYee23
closed
1 year ago
0
calling modifications on Pacbio Revio platform
#42
eric-hy
opened
1 year ago
1
Training error
#41
RahelehSalehi
opened
1 year ago
0
ccsmeth call_mods: indexError and TypeError
#40
dnalinkbi
closed
1 year ago
9
Normalization
#39
RahelehSalehi
opened
1 year ago
1
All reads are skipped/failed
#38
dnalinkbi
opened
1 year ago
4
Process stuck when split the data.
#37
xianyu0623
closed
1 year ago
4
Modify the number of the layers
#36
RahelehSalehi
opened
1 year ago
2
RuntimeError: cuDNN error: CUDNN_STATUS_EXECUTION_FAILED
#35
rl4940
opened
1 year ago
2
卡在11%不动了
#34
rl4940
closed
1 year ago
2
CCSMETH TRAIN
#33
olaraym
opened
1 year ago
3
call strand-specific methylation
#32
PengNi
opened
1 year ago
0
Call modification
#31
RahelehSalehi
opened
1 year ago
24
Extract features file structure
#30
RahelehSalehi
opened
1 year ago
15
confusion about the traditional ccsmeth procedure
#29
wzhang42
closed
1 year ago
2
setting temp folder for samtools
#28
drramki-chop
closed
2 years ago
1
never ending run
#27
romaingroux
opened
2 years ago
2
stderr/log optimization
#26
PengNi
closed
1 year ago
1
How to avoid call_freqb aggregate-mode using all cores automatically
#25
PengNi
opened
2 years ago
0
model for CHG or CHH with HiFi reads
#24
baozg
closed
1 year ago
13
A question about the output file
#23
hunkui1
closed
2 years ago
2
A question about BedTools
#22
hunkui1
closed
2 years ago
12
add submodule for model_ckpt downloading
#21
PengNi
opened
2 years ago
1
optimize ccsmeth call_mods procedure
#20
PengNi
closed
1 year ago
2
No local packages or working download links found for ('torch<=1.7.0,>=1.2.0')
#19
mikeds211
closed
2 years ago
1
how about cpg_tools of Pacbio
#18
hmyh1202
closed
2 years ago
6
Import error
#17
priyambial123
closed
2 years ago
2
Where is the master - models
#16
hunkui1
closed
2 years ago
6
allele-specific methylation
#15
yuntwang
closed
2 years ago
1
Installing ccsmeth
#14
priyambial123
closed
2 years ago
1
Question:types of input, old data or just HiFi?
#13
mikeds211
closed
2 years ago
9
about vocub_size
#12
XiaoyuShi97
closed
2 years ago
1
How to write a Dataset that reduces memory usage and fits in DistributedSampler?
#11
PengNi
closed
2 years ago
3
multi GPU training and testing
#10
PengNi
closed
2 years ago
1
Output reference CGs or not when there are SNVs at corresponding sites of reads
#9
PengNi
closed
2 years ago
1
empty output of ccsmeth extract command
#8
tiramisutes
closed
2 years ago
3
Call plant methylation using hg002 trained model？
#7
BoWangXJTU
closed
2 years ago
2
ccsmeth train
#6
SarahChen0401
closed
2 years ago
1
add pbmm2 as subreads aligner
#5
PengNi
closed
2 years ago
1
ccsmeth call_mods
#4
SarahChen0401
closed
2 years ago
4
interpret features.zscore.fb.depth1.call_mods.tsv
#3
SarahChen0401
closed
2 years ago
2
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